.

In C. neoformans and C. deneoformans, the gene for UTP12 harbors three box C/D snoRNAs, orthologues of yeast snR78, snR77 and snR73.

../../_images/utp12_h99_igb.png

snR78

  • snR78_intronic-boxCDsnoRNA-84nt-in-UTP12-CNB01050

  • Within 1st intron of CNB1050 (CNAG_03602) for UTP12

  • Predicted target in 25S rRNA: gacTctagtttga

  • Orthologue of yeast snR78, human SNORD52, assuming an irregular D’ box (guua)

../../_images/snR78-align.png

>AE017342.1:c324038-323954 Cryptococcus neoformans var. neoformans JEC21 chromosome 2 sequence
ATCGAGGATGACCTTGTGTTCATTTTCAAACTAGAGTCTGTTAGGCCAAGTGCCGAAGACCCATAAACGC
ACAATTCTGATACCT



snR77

  • snR77_intronic-boxCDsnoRNA-118nt-in-UTP12-CNB01050

  • Within 2nd intron of CNB1050 (CNAG_03602) for UTP12

  • Predicted target in 18S rRNA: (agcagcc)gcggTaattcc

  • Extension of baise-pair interaction is supported by an accessory guide (within brackets)

  • Orthologue of yeast snR77, human SNORD65

../../_images/snR77-align.png

>AE017342.1:c323796-323677 Cryptococcus neoformans var. neoformans JEC21 chromosome 2 sequence
CACAATGATGCCCCGAAAGGGAATTACCGCCTGAGCACATCTTCCTTCTGCGGCGTAGCAATACGTCCA
GAGGTTGGTGGCATGCTGTTAAAACATGGCTGTTTTATTTTTACTGATC



snR73-snoZ3

  • snR73-snoZ3_intronic-boxCDsnoRNA-93nt-in-Utp12-CNB01050

  • Within 3rd intron of CNB1050 (CNAG_03602) for UTP12

  • Predicted target in 25S rRNA: (tgggttt)agaCcgtcgtg

  • Extension of baise-pair interaction (within brackets) is supported by an accessory guide ACCCA specific to Tremellomycetes

  • Orthologue of fission yeast snoZ3, yeast snR73, human SNORD35A

../../_images/snoZ3-align.png

>AE017342.1:c323505-323413 Cryptococcus neoformans var. neoformans JEC21 chromosome 2 sequence
ATAAGTGATGATCACAACACGACGGTCTTCTTACCCAAAAAACCATGGTGTAAACGCCCGAAACCCATTT
CTCCGGGCACCCAATCTGACTCT




snR73b

../../_images/snR73-2_h99_igb.png

  • snR73_intronic-boxCDsnoRNA-91nt-in-CNL05500

  • Within intron of CNL05500 (CNAG_05070) for sulfite reductase (NADPH) hemoprotein, beta-component

../../_images/snR73b-align.png

>AE017352.1:540591-540681 Cryptococcus neoformans var. neoformans JEC21 chromosome 12 sequence
ATAAGTGATGATCACAACACGACGGTCTTCTTACAAAACCCATGGTGTAAAGGCCCGAAACCCATTTTTT
CCGGGCACCCGATCTGAATCT







  • Image source snR78:

# STOCKHOLM 1.0
#=GF RW van Nues, July 2023
#=GF https://coalispr.codeberg.page/paper
Annot/1-35                ------RTGATGA-----------------AGUUUGAUCUCAG-CTGA-------------RTGATGA------------------CTGA-------
#=GS H99/1-83 DE 2: [313,357 - 313,440] (+83)
H99/1-83                  -CATCGAGGATGACC-TTGTGTT--CATTTTCAAACTAGAGTCTGTTA-GGCCAAGTGCCGAAGACCCATAAACGCACAA----CTCTGATA-----
#=GS snR78/2-85 DE boxCDsnoRNA-84nt-in-CNB01050 ncrna 2:323954:324038:-1 AE017342.1:c324038-323954 Cryptococcus neoformans var. neoformans JEC21 chromosome 2 sequence
snR78/2-85                --ATCGAGGATGACC-TTGTGTT--CATTTTCAAACTAGAGTCTGTTA-GGCCAAGTGCCGAAGACCCATAAACGCACAA----TTCTGATACC---
#=GS R265/1-84 DE CP025762.1:1440841-1440924 Cryptococcus gattii VGII R265 chromosome 4
R265/1-84                 --ATCGAGGATGACT-CTGTGTT--CATTTTCAAACTAGAGTCTGTTA-GGCCAAGTGCCGAAGACCCATAAACGCACAA----CTCTGATACC---
#=GS WM276/1-84 DE CP000287.1:1482048-1482131 Cryptococcus gattii WM276 chromosome B, complete sequence
WM276/1-84                --ATCGAGGATGACT-CTGTGTT--CATTTTCAAACTAGAGTCTGTTA-GGCCAAGTGCCGAAGACCCAGAAACGCACAA----CTCTGATACC---
#=GS CryWin/1-82 DE CP034273.1:c836199-836118 Cryptococcus wingfieldii strain CBS7118 chromosome 13, complete sequence
CryWin/1-82               --TACAAGGATGACT-CTGTGTT---CAATTCAAACTAGAGTCTGTTA-GGCGAAACGCCCAAGACACTTAAACGCACTT----CTCTGATCA----
#=GS KwoSha/1-84 DE NQVO01000035.1:92473-92557 Kwoniella shandongensis strain CBS 12478 scaffold00035, whole genome shotgun sequence
KwoSha/1-84               -CTTCTTGGATGACTTC-GTGTT---CAATTCAAACTAGAGTCTGTTA-GGCCAAGTGCCCAAGACCCATAAACGCACATA----TCTGATACC---
#=GS TreFuc/1-85 DE LBGW01003240.1:5775-5859 Tremella fuciformis strain tr26 contig3240, whole genome shotgun sequence
TreFuc/1-85               -TCGACACGATGACCTA-GTGTT--CATTTTCAAACTAGAGTCTGTGA-GGCCAAGCGCCCAAGACACATAAACGCACAG----CTCTGATCTC---
#=GS PapLau/1-85 DE JAAZPX010000029.1:c402799-402715 Papiliotrema laurentii strain IF7SW-F4 scaffold52_cov208, whole genome shotgun sequence
PapLau/1-85               -TTCGCTGGATGACTTC-GTGTT--CATTTTCAAACTAGAGTCTGTTA-GGCCAAGCGCCCAAGACACTTAAACGCACAA----CTCTGACCTC---
#=GS TreYok/1-85 DE BRDC01000028.1:501809-501894 Tremella yokohamensis NBRC 100148 DNA, KCNB35TY.28, whole genome shotgun sequence
TreYok/1-85               -CCGACACGATGACCTA-GTGTT--CATTTTCAAACTAGAGTCTGTGA-GGCCAAGCGCCCAAGACACATAAACGCACAG----CTCTGATCTT---
#=GS KwoHev/1-85 DE ASQC01000116.1:c41236-41152 Kwoniella heveanensis CBS 569 cont2.116, whole genome shotgun sequence
KwoHev/1-85               -ACATCACGATGACTTC-GTGTT--CAATTTCAAACTAGAGTCTGTTA-GGCGAAATGCCCAAGACCCATAAACGCACAA----CTCTGAACTT---
#=GS NaeEnc/1-85 DE MCFC01000054.1:c57798-57712 Naematelia encephala strain 68-887.2 BCR39scaffold_54, whole genome shotgun sequence
NaeEnc/1-85               -TCTTCTGGATGACTTC-GTGTT--CAATTTCAAACTAGAGTCTGTTA-GGCCAAGTGCCCAAGAAACTTAAACGCACAA----CTCTGAAACA---
#=GS KwoMan/1-86 DE ASQF01000041.1:c503682-503597 Kwoniella mangroviensis CBS 8886 cont1.41, whole genome shotgun sequence
KwoMan/1-86               -TCTCAACGATGACTTC-GTGTT-CAATTTTCAAACTAGAGTCTGTTA-GGCGAAATGCCCAAGACCCATAAACGCACAA----CTCTGAACTG---
#=GS BulAlb/4-88 DE CAMYTR010000047.1:c458905-458818 Bullera alba genome assembly, contig: jcf7180000012140, whole genome shotgun sequence
BulAlb/4-88               CCGCGTGGGATGACTTC-GTGTT---CAATTCAAACTAGAGTCTGTTA-GGCCAAGTGCCCAAGACACTTAAACGCACAA----CTCTGATCCT---
#=GS CrySki/1-83 DE BCHT01000011.1:188536-188618 Cryptococcus skinneri DNA, scaffold: scaffold_10, strain: JCM 9039, whole genome shotgun sequence
CrySki/1-83               --TTCTCGGATGACTTC-GTGTT---CAATTCAAACTAGAGTCTGTTA-GGCCAAGCGCCGAAGACACTTAAACGCACAG----TTCTGAATTT---
#=GS PapTer/2-87 DE JAHXHD010001319.1:c16902-16816 Papiliotrema terrestris strain LS28 scaffold-1318, whole genome shotgun sequence
PapTer/2-87               CCTCTCCGGATGACTTC-GTGT--ACAACATCAAACTAGAGTCTGTTA-GGCCAAGCGCCCAAGACACTTAAACGCACAG----CTCTGAACTG---
#=GS TreMes/1-85 DE SDIL01000030.1:159672-159756 Tremella mesenterica strain ATCC 28783 supercont1.30, whole genome shotgun sequence
TreMes/1-85               CCCATCGCGATGATCTC-GTGTT---CAAATCAAACTAGAGTCTGTTA-GGCCCAGTGCCAGAGACACATACACGCACAA----CTCTGAATGA---
#=GS NaeAur/1-85 DE JAKFAO010000001.1:c2085433-2085345 Naematelia aurantialba strain NX-20 Contig1, whole genome shotgun sequence
NaeAur/1-85               CTTCCTCGGATGACAGC-GTGTT---CAATTCAAACTAGAGTCTGTTA-GGCCAAGCGCCAAAGAAACTTAAATGCACAA----CTCTGATCCC---
#=GS TriOvo/1-87 DE WEIQ01000023.1:c467242-467156 Trichosporon ovoides strain 2NF903A scaffold23-size702783, whole genome shotgun sequence
TriOvo/1-87               CCAGCGAGGATGACCACTGTGT--AACATTTCAAACTAGAGTCTGTTATGGCCAAGCGCCGAAGACACTTAAACGCACA-----CTCTGAGCTC---
#=GS CryFlo/1-85 DE RRZH01000014.1:240546-240630 Cryptococcus floricola strain DSM 27421 chromosome 13, whole genome shotgun sequence
CryFlo/1-85               CATACAAGGATGACT-CTGTGTT---CAATTCAAACTAGAGTCTGTTA-GGCGAAACGCCCAAGACACTTAAACGCAC-TT---CTCTGATCAT---
#=GS CryAmy/1-85 DE MEKH01000012.1:c775657-775572 Cryptococcus amylolentus CBS 6273 supercont2.12, whole genome shotgun sequence
CryAmy/1-85               CATACAAGGATGACT-CTGTGTT---CAATTCAAACTAGAGTCTGTTA-GGCGAAACGCCCAAGACACTTAAACGCAC-TT---CTCTGATCAT---
#=GS TreTag/4-89 DE CAJHEQ010000754.1:c3307-3218 MAG: Tremellales sp. Tagirdzhanova-0007 genome assembly, contig: TREM_754, whole genome shotgun sequence
TreTag/4-89               CTCGTTCGGATGACTATTGTGTT---ACAATCAAACTAGAGTCTGTTA-GGCCAAGCGCCAAAGACACATGGATGCACAG----CTCTGATCCT---
#=GS TriCor/1-89 DE JXYL01000001.1:191911-191999 Trichosporon coremiiforme strain JCM 2938 scaffold_0001, whole genome shotgun sequence
TriCor/1-89               CCAGCAAGGATGACCACTGTGTAACACATTTCAAACTAGAGTCTGTTATGGCCAAGCGCCGAAGACACTGAAACGCACA-----CTCTGAGCAC---
#=GS TriAsa/1-89 DE JAMYHT010000006.1:c708996-708908 Trichosporon asahii strain F6008 ctg_6, whole genome shotgun sequence
TriAsa/1-89               CCAGCAAGGATGACCACTGTGTAACACATTTCAAACTAGAGTCTGTTATGGCCAAGCGCCGAAGACACTGAAACGCACA-----CTCTGAGCAC---
#=GS TriInk/1-87 DE QAEE01006308.1:c637-550 Trichosporon inkin strain ATCC 18020 NODE_6403_length_1078_cov_5.15085_ID_89520, whole genome shotgun sequence
TriInk/1-87               CCAGCAAGGATGACCACTGTGT--AACATTTCAAACTAGAGTCGGTTATGGCTATGCGCCGAAGACACTTAAACGCACA-----CTCTGAGCTT---
#=GS SacCer-snR78/1-87 DE http://snoopy.med.miyazaki-u.ac.jp/snorna_db.cgi?mode=sno_info&id=Saccharomyces_cerevisiae300011
SacCer-snR78/1-87         --TCCCTTGATGACCAAAATAAAT--TTTTACAAACTAGAGTTTCTGAATCTTTT------GTGATTAGAACGTTTATTCTTATTTCTGAGGTTTTT
#=GS SNORD52/1-64 DE http://snoopy.med.miyazaki-u.ac.jp/snorna_db.cgi?mode=sno_info&id=Homo_sapiens300529
SNORD52/1-64              --GGGAATGATGA-----TTT--------CACAGACTAGAGTCTCCGATGCTGGTC-----ATGATGTC------AAAACTAAGTTCTGA-------
#=GS SchPom/1-78 DE Schizosaccharomyces_pombe-snoZ8-http://snoopy-med-miyazaki-u-ac-jp/snorna_db-cgi?mode=sno_info&id=Schizosaccharomyces_pombe300047
SchPom/1-78               --ATCTTTGATGACCATTTTTT---AAAATACAAACTAGAGTTTCTGAT---TAATTT---ATGATTTC------AAATTC--TTGCTGAGTTTAGT
#=GC SS                   -----------------(((((----------------------------------------------------)))))------------------
//

  • Image source snR77:

# STOCKHOLM 1.0
#=GF RW van Nues, July 2023
#=GF https://coalispr.codeberg.page/paper
Annot/23-63               -----RTGATGA--------------------CCUUAAUGGCGCTGA-------------------------------------------------------RTGATGA-------gCCGACGA----------CTGA-----
#=GS snR77/1-118 DE boxCDsnoRNA-119nt-in-CNB01050 ncrna 2:323677:323796:-1
snR77/1-118               -CACAATGATGCCC------------CGAAAGGGAATTACCGCCTGAGCACATCTTCCTTCTGCGGCGTA--GCAA----TACGTCCAGAGGTTGGT--GGCATGCTGTTAAAACATGGCTGTTTTATTTTT-ACTGATC---
#=GS H99/1-118 DE 2: [313,064 - 313,182] (+118)
H99/1-118                 -TACAATGATGCCC------------CGAAAGGGAATTACCGCCTGAGCACATCTTCCTTTTGCGGCGTA--GCAA----TACGTCCAGAGGTTGGT--GGCATGCTGTCAAAACATGGCTGTTTTATTTTT-ACTGATC---
#=GS R265/1-118 DE CP025762.1:1441095-1441212 Cryptococcus gattii VGII R265 chromosome 4
R265/1-118                CCACAATGATGCCC------------CGAAAGGGAATTACCGCCTGAGCACATCTTC-TTCTGCGGCGTA--GCAA----TACGTCCAGAG-TTGGT--GAGATGCTGTTAAAACATGGCTGTTTTATTTTT-ACTGAGCA--
#=GS WM276/1-118 DE CP000287.1:1482303-1482420 Cryptococcus gattii WM276 chromosome B, complete sequence
WM276/1-118               CCACAATGATGCCC------------CGAACGGGAATTACCGCCTGAGCACATCTTC-TTCTGCGGCGTA--GCAA----TACGTCCGGAG-TTGGT--GACATGCTGTTAAAACATGGCTGTTTTATTTTT-ACTGAGCA--
#=GS CryFlo/1-117 DE RRZH01000014.1:240807-240924 Cryptococcus floricola strain DSM 27421 chromosome 13, whole genome shotgun sequence
CryFlo/1-117              ---CAATGATGTCC------------CATTTGGGAATTACCGCCTGATTGCGCATTCAACTC-CGGCGTA--GCAA----TACGTTGGAGTCGTCTG-CGATATGCTGTCAAAACATGGCTGTTTTATTTTT-ACTGATCC--
#=GS CryAmy/1-120 DE MEKH01000012.1:c775398-775278 Cryptococcus amylolentus CBS 6273 supercont2.12, whole genome shotgun sequence
CryAmy/1-120              TCTCAATGATGTCC------------CATTTGGGAATTACCGCCTGATTGCGCATTCAATTC-CGGCGTA--GCAA----TACGTTGGAGTCGTCTG-CGATATGCTGTCAAAACATGGCTGTTTTATTTTT-ACTGATTC--
#=GS NaeEnc/2-117 DE MCFC01000054.1:c57545-57425 Naematelia encephala strain 68-887.2 BCR39scaffold_54, whole genome shotgun sequence
NaeEnc/2-117              TCATCATGATGCTC------------CCTTTGGGAATTACCGCCTGAGCTCCTCAGACTACTCTTGCG----AATG-------CTTGAGAGCTGGGGGG-CGTTGCTGTTAAAACATGGCTGTTTTATTTCT-ACTGATCC--
#=GS NaeAur/3-118 DE JAKFAO010000001.1:c2085185-2085063 Naematelia aurantialba strain NX-20 Contig1, whole genome shotgun sequence
NaeAur/3-118              TCATCATGATGCTC------------CCTTTGGGAATTACCGCCTGAGCTCCTCATACTCCTCTTGCG----AACG-------CTTGAGAGCTGGGGAA-CGTTGCTGTTAAAACATGGCTGTTTTATCTTT-ACTGATCT--
#=GS KwoSha/1-119 DE NQVO01000035.1:92786-92905 Kwoniella shandongensis strain CBS 12478 scaffold00035, whole genome shotgun sequence
KwoSha/1-119              --TAAATGATGTCC------------CATATGGGAATTACCGCCTGAGCATGCCCATTGACTTTGGCGTA--GCAA----TACGCTGGAGACGTGGG-CAATCTGCTGATAAAACATGGCTGTTTTATTTTT-ACTGATTC--
#=GS KwoHev/1-121 DE ASQC01000116.1:c40881-40760 Kwoniella heveanensis CBS 569 cont2.116, whole genome shotgun sequence
KwoHev/1-121              CTTCAATGATGTCC------------CATATGGGAATTACCGCCTGAGCTTGCCCGTTGATTCGCCCGTA--GCAA----TACGGGTGATGAAGCGGGTAAATTGCTGACAAAACATGGCTGTTTTAATCT--ACTGATCA--
#=GS KwoMan/1-121 DE ASQF01000041.1:c503379-503258 Kwoniella mangroviensis CBS 8886 cont1.41, whole genome shotgun sequence
KwoMan/1-121              CTTACATGATGTCC------------CATATGGGAATTACCGCCTGAGCACGCTCGTCAACTCGCCTGTA--GCGA----TACAGGAGAGGAGACGGGTAATTTGCTGATAAAACATGGCTGTTTTAATTT--ACTGATTC--
#=GS CryWin/2-122 DE AWGH01000023.1:136710-136832 Cryptococcus wingfieldii CBS 7118 supercont1.23, whole genome shotgun sequence
CryWin/2-122              TCTCAATGATGTCC------------CATTTGGGAATTACCGCCTGATTGCGCATTCAACTCCGGCGT---AGCAAT---ACGTT--GGAGTCGTCTGCGATATGCTGTCAAAACATGGCTGTTTTATTTTTTACTGATCC--
#=GS CryFla/2-118 DE CAUG01000432.1:178944-179062 Cryptococcus flavescens NRRL Y-50378 WGS project CAUG00000000 data, contig NODE_883_length_201895_cov_45_838108, whole genome shotgun sequence
CryFla/2-118              TTATCATGATGTCC------------CATATGGGAATTACCGCCTGAGCGCATCGTCAGCACCGG-----GGTTAAAG-----CCGGGGCCGGCGGTGTACGATGCTGTCAAAACATGGCTGTTTTATTTT--ACTGATTC--
#=GS TriInk/2-120 DE QAEE01006308.1:c438-318 Trichosporon inkin strain ATCC 18020 NODE_6403_length_1078_cov_5.15085_ID_89520, whole genome shotgun sequence
TriInk/2-120              CTTGCATGATGTCC------------CATATGGGAATTACCGCCTGAGTCTGCTGCAATGGCCGTC-----TTAATT---GACGGTCGCT-GCGGTTGGGCAATGTAGACAAAACATGGCTGTTTTATTTTT-ACTGATCC--
#=GS TriAsa/11-129 DE SCGW01000171.1:c22507-22378 MAG: Trichosporon asahii isolate N5_275_008G1 N5_275_008G1_scaffold_241, whole genome shotgun sequence
TriAsa/11-129             CTTACAAGATGTCC------------CATATGGGAATTACCGCCTGAGTCCGCTGCGATGGCCGTC-----TTAATT---GCCGGTTGTC-GCGGTTGGGCATTGTAGACAAAACATGGCTGTTTTATTTTT-ACTGATCT--
#=GS TriCor/2-120 DE JXYL01000003.1:1411984-1412106 Trichosporon coremiiforme strain JCM 2938 scaffold_0003, whole genome shotgun sequence
TriCor/2-120              TTTACAAGATGTCC------------CATATGGGAATTACCGCCTGAGTCCGCTGCGATGGCCGTC-----TTAATT---GCCGGTTGTC-ACGGTTGGGCGTTGCAGACAAAACATGGCTGTTTTATTTTT-ACTGATCT--
#=GS TriOvo/2-120 DE JAMALT010000051.1:c174818-174695 Trichosporon ovoides strain 2NF903B ctg_51, whole genome shotgun sequence
TriOvo/2-120              TCTACATGATGTCC------------CATATGGGAATTACCGCCTGAGTCCGCTGCGGCGGCCGTC-----TTAGTT---GACGGTCGTC-GCGGTTGGGCGTTGCAGACAAAACATGGCTGTTTTATTTTT-ACTGATTT--
#=GS PapLau/3-118 DE JAAZPX010000029.1:c402548-402430 Papiliotrema laurentii strain IF7SW-F4 scaffold52_cov208, whole genome shotgun sequence
PapLau/3-118              TCATCATGATGTCC------------CATATGGGAATTACCGCCTGAGCGCATTGTCGATCCTGG-----GTGCAAA------TCCGGGACGGCAATGTTCATTGCTGTCAAAACATGGCTGTTTTACTTT--ACTGATCC--
#=GS PapTer/2-118 DE JAHXHD010001319.1:c16699-16580 Papiliotrema terrestris strain LS28 scaffold-1318, whole genome shotgun sequence
PapTer/2-118              TCGACATGATGTCC------------CACTTGGGAATTACCGCCTGAGCGCACCGTCAGCG----ACGGGGTTAAAGCC------GGAGCTGGCGGTGTACGATGCTGTCAAAACATGGCTGTTTTAATTT--ACTGATTC--
#=GS BulAlb/1-121 DE CAMYTR010000047.1:c458665-458544 Bullera alba genome assembly, contig: jcf7180000012140, whole genome shotgun sequence
BulAlb/1-121              CTTTAATGATGCTC------------CCTTTGGGAATTACCGCCTGAGTGCATTTGGCATTCCTGGGC---TTTCGG---GCTCGGGC-TGTTGGGTGTACGTTGCAGACAAAACATGGCTGTTTTATTTTT-ACTGAAAT--
#=GS CrySki/20-141 DE BCHT01000011.1:188759-188905 Cryptococcus skinneri DNA, scaffold: scaffold_10, strain: JCM 9039, whole genome shotgun sequence
CrySki/20-141             TCTTAATGATGTCG------------CATTTGCGAATTACCGCCTGAGTTCTTGATCTCTATCCCGTC---TTCATT---GCCGGGATGGATATTGAGGACGGTGCAGACGAAACATGGCTGTTTTATTTTT-ACTGAAAT--
#=GS TreMes/2-120 DE SDIL01000030.1:159984-160105 Tremella mesenterica strain ATCC 28783 supercont1.30, whole genome shotgun sequence
TreMes/2-120              CCTGAATGATGTCC-----------CGCATAGGGAATTACCGCCTGAGCAGCTC-CCTCCGTCCCGTC---TTGATT---GCCGGGACG-AG-GAGGAAGCACTGTTGATAGAACATGGCTGTTTTAACTT--ACTGACTC--
#=GS TreFuc/3-121 DE LBGW01003240.1:5990-6112 Tremella fuciformis strain tr26 contig3240, whole genome shotgun sequence
TreFuc/3-121              TCCGTATGATGTCC-----------CATATTGGGAATTACCGCCTGAGCAGCTT-CCTCCGTCCCGTC---TTCATT---GACGGGGCG-AG-GGAGAAGCACTGCTGATAGAACATGGCTGTTTTAAACTT--CTGATCT--
#=GS KocImp/14-107 DE NBSH01000002.1:c341805-341691 Kockovaella imperatae strain NRRL Y-17943 BD324scaffold_2, whole genome shotgun sequence
KocImp/14-107             TTTTGCGGATGATA------------CACTT-GGAATTACCGACTGAGCGCTGCTC----------------TACG----------------GAGCAGAGAAATGCTGTCGAAACATGGCTGTTTTAAATAT--CTGAACC--
#=GS SacCer-snR77/1-88 DE http://snoopy.med.miyazaki-u.ac.jp/snorna_db.cgi?mode=sno_info&id=Saccharomyces_cerevisiae300012
SacCer-snR77/1-88         TTCATATGATGATTATAACAAAAACAAAAGCTGGAATTACTGGCTGAACG----------------------AGTA-------------------------TATGTTGATACGTTTTTGCACTAT--------CCTGACCTAG
#=GS SNORD65/1-73 DE http://snoopy.med.miyazaki-u.ac.jp/snorna_db.cgi?mode=sno_info&id=Homo_sapiens300705
SNORD65/1-73              ---AAATGATGAAATCACCCAAAA---TAGCTGGAATTACCGGCAGATT-----------------------GTGT-------------------------AGTGGTGA-ACCT-ATGGTTTT-----------CTGAAG---
#=GC SS_cons              -----------------------------------------------------------((((((-------------------))))))-----------------------------------------------------
//

  • Image source snR73-snoZ3:

# STOCKHOLM 1.0
#=GF RW van Nues, July 2023
#=GF https://coalispr.codeberg.page/paper
#=GS H99/1-92 DE CP003821.1:c312891-312800 Cryptococcus neoformans var. grubii H99 chromosome 2, complete sequence
H99/1-92                   --ATAAGTGATGATCAC------AACACGACGGTCTTCTTACCCA---------AAAAAA---------CCATGGTGTAAAC--GCCCGAAACCCA------TTTTT------CCGGGCACCCAATCTGACT-------
#=GS snR73-snoZ3/1-93 DE boxCDsnoRNA-91nt-in-CNB01050 ncrna 2:323414-323507:-1
snR73-snoZ3/1-93           --ATAAGTGATGATCAC------AACACGACGGTCTTCTTACCCA---------AAAAA----------CCATGGTGTAAAC--GCCCGAAACCCA------TTTCT------CCGGGCACCCAATCTGACTCT-----
#=GS WM276/1-95 DE >CP000287.1:1482592-1482686 Cryptococcus gattii WM276 chromosome B, complete sequence
WM276/1-95                 TAATAAGTGATGATCAC------AACACGACGGTCTTCTTACCCA---------AAAAA----------CCATGGTGTAAAC--GCCCGAAACCCA------TTTCT------CCGGGCACCCAATCTGACTCT-----
#=GS R265/1-95 DE CP025762.1:1441375-1441469 Cryptococcus gattii VGII R265 chromosome 4
R265/1-95                  -AATAAGTGATGATCAC------AACACGACGGTCTTCTTACCCA---------AAAAA----------CCATGGTGTAAAC--GCCCGAAACCCA------TTTCT------CCGGGCACCCAATCTGACTTCT----
#=GS R265/1-90 DE CP025760.1:c333894-333805 Cryptococcus gattii VGII R265 chromosome 2, complete sequence
R265/1-90                  -TATAAATGATGATCAC------AACACGACGGTCTTCTTACAAA----------AC------------CCATGGTGTAAAG--GCCCGAAACCCA------TTTTT------CCGGGCGCCCGATCTGAATC------
#=GS TreFuci/1-88 DE LBGW01003240.1:6260-6347 Tremella fuciformis strain tr26 contig3240, whole genome shotgun sequence
TreFuci/1-88               --ATAAATGATGATCCC------AACACGACGGTCTTCTTACCCA----------A-------------CGCTGGTGAACAC--GCCCGAAACCCA------ATACA------CCGGGCAACCAATCTGAATC------
#=GS KwoHev/4-118 DE ASQB01000008.1:49150-49269 Kwoniella heveanensis BCC8398 cont1.8, whole genome shotgun sequence
KwoHev/4-118               ACATAAATGATGATCAC------AACACGACGGTCTTCTTACCAAGTTTTTATA-TTGC-TATAAAAACGACTGGTGAAAAC--GCCCGAAACCCAAT------AC----ATCCCGGGCAACCCATCTGACTTCG----
#=GS TriOvpo/1-103 DE WEIQ01000050.1:53665-53788 Trichosporon ovoides strain 2NF903A scaffold50-size228216, whole genome shotgun sequence
TriOvpo/1-103              -AATAAATGATGATCAC------ATCACGACGGTCTACTTACACA----------T-------------TCCTGGTGAAAAG--GCCCGAAACCCAATGCGTTAAATCGCATCCCGGGCACCCAATCTGAGCCAT----
#=GS TriAsa/1-103 DE SCGW01000171.1:c22239-22126 MAG: Trichosporon asahii isolate N5_275_008G1 N5_275_008G1_scaffold_241, whole genome shotgun sequence
TriAsa/1-103               -AATAAATGATGATCAC------ATCACGACGGTCTACTTACACA----------T-------------TCCTGGTGAAAAG--GCCCGAAACCCAATACATTAAATTGTATCCCGGGCACCCAATCTGAGCCAT----
Annot/45-81                ------RTGATGA------------GUGCUGCCAGA-CTGA------------------------------RTGATGA-------------------------------------------------------------
#=GS SchPom-snoZ3/1-90 DE Schizosaccharomyces_pombe snoZ3 http://snoopy.med.miyazaki-u.ac.jp/snorna_db.cgi?mode=sno_info&id=Schizosaccharomyces_pombe300051
SchPom-snoZ3/1-90          --TCACATGATGTTTTTACTTTAATCACGACGGTCTACGTAGTTT----------CTA-----------CATTGACGAAGAT-TGCCT--------------GTGACA-------AGGCGCTTTTTCTGAATGTA----
#=GS SacCer-snR73/1-106 DE http://snoopy.med.miyazaki-u.ac.jp/snorna_db.cgi?mode=sno_info&id=Saccharomyces_cerevisiae300016
SacCer-snR73/1-106         --GTTTATGATGATTT-CCACATTTCACGACGGTCAACTGC----GTTTTTCGAATGTTTATCGATTAACTTTGATGATATTTCGCCT--------------GTGACA-------GGGCGTGGTA-CTGAGCTTT----
#=GS SNORD35A/1-86 DE http://snoopy.med.miyazaki-u.ac.jp/snorna_db.cgi?mode=sno_info&id=Homo_sapiens300566
SNORD35A/1-86              -GGCAGATGATGT----CCTTATCTCACGATGGTCTGCGGATG--TCCC-----TGT---------GGGA-ATGGCGAC--AATGCC-----------------AAT---------GGC-TT--AGCTGATGCCAGGAG
#=GC SS_cons               ---------------------------------------------(((((((((-------)))))))))--------------(((((-------(((((------)))))--)))))--------------------
//

  • Image source snR73b:

# STOCKHOLM 1.0
#=GF RW van Nues, August 2023
#=GF https://coalispr.codeberg.page/paper
Annot/1-33                 ----RTGATGA-----------GUGCUGCCAGA-CTGA--------------RTGATGA-------------UGGGU-------------------------------CTGA----
#=GS snR73b/1-91 DE boxCDsnoRNA-91nt_intronic-CNL05500 ncrna 12:540590:540681:1 AE017352.1:540591-540681 Cryptococcus neoformans var. neoformans JEC21 chromosome 12 sequence
snR73b/1-91                ATAAGTGATGA-----TCACAACACGACGGTCTTCTTA---CAAAACCC---ATGGTGT--AAAGGCCCGAAACCCATT-----------TTTTCCGGGCACCCGA-TCTGAATCT
#=GS WM276/1-91 DE CP000289.1:c343385-343295 Cryptococcus gattii WM276 chromosome D, complete sequence
WM276/1-91                 ATAAATGATGA-----TCACAACACGACGGTCTTCTTA---CAAAACCC---ATGGTGT--AAAGGCCCGAAACCCATT-----------TTTTCCGGGCGCCCGA-TCTGAATCT
#=GS in-CNAG_05070/1-89 DE CP003823.1:c352218-352130 Cryptococcus neoformans var. grubii H99 chromosome 4, complete sequence
in-CNAG_05070/1-89         ATACGTGATGA-----TTACAACACGACGGTCTTCTTA---CAAAACCC---ATGGTGT--AAAGGCCCGAAACCCATT-----------TTTTCCGGGCACCCGA-TCTGAAT--
#=GS R265/1-90 DE CP025760.1:c333893-333804 Cryptococcus gattii VGII R265 chromosome 2, complete sequence
R265/1-90                  ATAAATGATGA-----TCACAACACGACGGTCTTCTTA---CAAAACCC---ATGGTGT--AAAGGCCCGAAACCCA-T-----------TTTTCCGGGCGCCCGA-TCTGAATCT
#=GS TriGue/1-89 DE BCJX01000006.1:368421-368509 Trichosporon guehoae DNA, scaffold: scaffold_5, strain: JCM 10690, whole genome shotgun sequence
TriGue/1-89                ATAAATGATGA-----TCACATCACGACGGTCTACTTA---CAAAACCC---ATGGTGA--AAAGGCCCGAAACCCA-T-----------TTTTCCGGGCAACCCA-TCTGAATC-
#=GS KwoHev/1-89 DE ASQC01000116.1:c40549-40461 Kwoniella heveanensis CBS 569 cont2.116, whole genome shotgun sequence
KwoHev/1-89                ATAAATGATGA-----TCACAACACGACGGTCTTCTTA---CCTCATG----CTGGTGT--AAACGCCCGAAACCCATT-----------TTTTGCGGGCACCCAA-TCTGACTC-
#=GS PapLau/1-89 DE JAAZPX010000029.1:c402071-401983 Papiliotrema laurentii strain IF7SW-F4 scaffold52_cov208, whole genome shotgun sequence
PapLau/1-89                ATATGTGATGA-----TC-CAACACGACGGTCTACTTA---CACACCA----CTGGTGA--AAAGGCCCGAAACCCATT-----------TTTACCGGGCACCCAA-TCTGATCCC
#=GS PapLau-2/2-91 DE JAAZPX010000029.1:c402286-402196 Papiliotrema laurentii strain IF7SW-F4 scaffold52_cov208, whole genome shotgun sequence
PapLau-2/2-91              ATGCATGATGA-----T-ACAACACGACGGTCTTCTTA---CCCGATG----TTGGTGA--AAACGCCCGAAACCCAAT----------TCTGTCCGGGCACCCAA-TCTGATCTT
#=GS KwoMan/1-95 DE ASQF01000041.1:c503037-502943 Kwoniella mangroviensis CBS 8886 cont1.41, whole genome shotgun sequence
KwoMan/1-95                ATAAATGATGA-----TCAC-ACACGACGGTCTTCTTA-CATATAAAAAAG-CTGGTGT--AAAGGCCCGAAACCCATT-----------TTATCCGGGCACCCAAATCTGACTCA
#=GS KwoSha/1-92 DE NQVO01000035.1:93119-93210 Kwoniella shandongensis strain CBS 12478 scaffold00035, whole genome shotgun sequence
KwoSha/1-92                ATAAGTGATGA-----TC-CAACACGACGGTCTTCTTA-CCAAATAACAAG-CTGGTGT--AAACGCCCG--ACCCATT-----------TTTTCCGGGCATCCAA-TCTGACTCT
#=GS TreFuc/1-89 DE BRDD01000092.1:29078-29166 Tremella fuciformis NBRC 9317 DNA, KCNB80TF.92, whole genome shotgun sequence
TreFuc/1-89                ATAAATGATGA-----TCCCAACACGACGGTCTTCTTA---CCATACA----ATGGTGA--AAACGCCCGAAACCCAAT------------ATACCGGGCAACCAA-TCTGAATCA
#=GS TreYok/1-89 DE BRDC01000028.1:502293-502381 Tremella yokohamensis NBRC 100148 DNA, KCNB35TY.28, whole genome shotgun sequence
TreYok/1-89                ATAAATGATGA-----TCCCAACACGACGGTCTTCTTA---CCATACA----ATGGTGA--AAACGCCCGAAACCCAAT------------ATACCGGGCAACCAA-TCTGAATCC
#=GS TreMes/1-89 DE SDIL01000030.1:160258-160346 Tremella mesenterica strain ATCC 28783 supercont1.30, whole genome shotgun sequence
TreMes/1-89                TTATGTGATGA-----TCACAACACGACGGTCTTCTTA----CCCATG----CTGGTGA--AACCGCCCGAAACCCAAT-----------TTACCCGGGCAACCAA-TCTGATCTT
#=GS TriInk/1-98 DE QAYW01013026.1:158-255 Trichosporon inkin strain C-2155 NODE_13046_length_498_cov_3.26366_ID_255351, whole genome shotgun sequence
TriInk/1-98                ATAAATGATGA-----TCACATCACGACGGTCTACTTA---CAACCTC----ATGGTGA--AAAGGCCCGAAACCCAAT-GCTTAAA-GCA-TCCCGGGCACCCAA-TCTGAGCCA
#=GS TriOvo/1-99 DE WEIQ01000023.1:c466783-466685 Trichosporon ovoides strain 2NF903A scaffold23-size702783, whole genome shotgun sequence
TriOvo/1-99                ATAAATGATGA-----TCACATCACGACGGTCTACTTA---CAACCTC----ATGGTGA--AAAGGCCCGAAACCCAAT-GCATAATCGCA-TTCCGGGCACCCAA-TCTGAGCCA
#=GS CryFla/1-90 DE CAUG01000432.1:179417-179506 Cryptococcus flavescens NRRL Y-50378 WGS project CAUG00000000 data, contig NODE_883_length_201895_cov_45_838108, whole genome shotgun sequence
CryFla/1-90                TCTTATGAAGA-----T-ACAACACGACGGTCTTCTTA---CCATACA----CTGGTGA--AAACGCCCGAAACCCAAT----------TCTGTCCGGGCAACCAA-TCTGAACTG
#=GS CryFla-2/1-86 DE CAUG01000432.1:179205-179291 Cryptococcus flavescens NRRL Y-50378 WGS project CAUG00000000 data, contig NODE_883_length_201895_cov_45_838108, whole genome shotgun sequence
CryFla-2/1-86              ATATGTGATGA-----TT-CAACACGACGGTCTACTGA----ACCTCA----ATGGTGA--AAAGGCCCGA-ACCCATT------------TTTACGGGCACCCAA-TCTGAACTC
#=GS TreTag/1-89 DE CAJHEQ010000754.1:c2795-2707 MAG: Tremellales sp. Tagirdzhanova-0007 genome assembly, contig: TREM_754, whole genome shotgun sequence
TreTag/1-89                TTATATGATGA-----TCACAACACGACGGTCTTCTTA----CCCTTG----GTGGTGA--AAACGCCCGAAACCCAATAC-----------TTCCGGGCAACCAA-TCTGATTCC
#=GS TriCor/1-101 DE JXYL01000001.1:192388-192488 Trichosporon coremiiforme strain JCM 2938 scaffold_0001, whole genome shotgun sequence
TriCor/1-101               ATAAATGATGA-----TCACATCACGACGGTCTACTTA---CATATTC----CTGGTGA--AAAGGCCCGAAACCCAATACATTAAATTGTATCCCGGGCACCCAA-TCTGAGCCA
#=GS TriAsa/1-101 DE JAMYHT010000006.1:c708518-708418 Trichosporon asahii strain F6008 ctg_6, whole genome shotgun sequence
TriAsa/1-101               ATAAATGATGA-----TCACATCACGACGGTCTACTTA---CACATTC----CTGGTGA--AAAGGCCCGAAACCCAATACATTAAATTGTATCCCGGGCACCCAA-TCTGAGCCA
#=GS PapTer/1-89 DE JAHXHD010001319.1:c16230-16142 Papiliotrema terrestris strain LS28 scaffold-1318, whole genome shotgun sequence
PapTer/1-89                TTTTATGAAGA-----TA-CAACACGACGGTCTTCTTA----CCGATG----CTGGTGA--AAACGCCCGAAACCCAAT----------TCTGTCCGGGCAACCAA-TCTGAATTT
#=GS PapTer-2/1-86 DE JAHXHD010001319.1:c16441-16356 Papiliotrema terrestris strain LS28 scaffold-1318, whole genome shotgun sequence
PapTer-2/1-86              ATATGTGATGA-----TT-TAACACGACGGTCTACTGA----ACCTCA----ATGGTGA--AAAGGCCCGA-ACCCATT------------TTTACGGGCACCCAA-TCTGAACTT
#=GS VanFra/1-88 DE BEDY01000001.1:c3818632-3818545 Vanrija fragicola DNA, scaffold: scaffold_1, strain: JCM 1530, whole genome shotgun sequence
VanFra/1-88                ACAAATGATGA-----TCAC-ACACGACGGTCTACAGA--CAAAACCC----TAGGTGA--AAAGGCCCGA-ACCCATT-----------TTACGCGGGCACTTC--TCTGACTTG
#=GS CutOle/1-90 DE QKWL01000001.1:3879203-3879292 Cutaneotrichosporon oleaginosum strain ATCC 20508 ATCC20508_contig01, whole genome shotgun sequence
CutOle/1-90                ATAAATGATGA-----TCCCATCACGACGGTCTACTGA--GCAAAACCA---TTGCTGA--AAAGGCCCGAAACCCATT------------TTTCCGGGCACTTC--TCTGAACCT
#=GS KocImp/1-87 DE NBSH01000002.1:c341582-341496 Kockovaella imperatae strain NRRL Y-17943 BD324scaffold_2, whole genome shotgun sequence
KocImp/1-87                ATATGTGATGA-----TCCAATCACGACGGTCTAC-TT---AGACACGA---CTGCTGA--AAACGTCCG--ACCCAAT------------TTTACGGACACCCAA-TCTGAACCT
#=GS BulAlb/1-94 DE CAMYTR010000047.1:c458388-458295 Bullera alba genome assembly, contig: jcf7180000012140, whole genome shotgun sequence
BulAlb/1-94                ATAAATGAAGA-----T-ACAACACGACGGTCTACTTACCAAAAAAAACAAACTGGTGA--AAACGCCCGAAACCCATT-------------TCCCGGGCAACCAA-TCTGAACCC
#=GS CryFlo/1-93 DE RRZH01000014.1:241090-241183 Cryptococcus floricola strain DSM 27421 chromosome 13, whole genome shotgun sequence
CryFlo/1-93                ATAAAGGACGA-----TCACAACACGACGGTCTTCTGA--AATAAATACA--CCGAGTAGTAAAGGCCCG--ACCCATA-----------TTATACGGGCACCCAA-TCTGAATCC
#=GS CryAmy/1-92 DE MEKH01000012.1:c775108-775017 Cryptococcus amylolentus CBS 6273 supercont2.12, whole genome shotgun sequence
CryAmy/1-92                ATAAAGGACGA-----TCACAACACGACGGTCTTCTGA--AATAAAAACA--CCGAGTAGTAAAGGCCCG--ACCCATA------------TATACGGGCACCCAA-TCTGAATCT
#=GS CryWin/1-92 DE AWGH01000023.1:136998-137089 Cryptococcus wingfieldii CBS 7118 supercont1.23, whole genome shotgun sequence
CryWin/1-92                ATAAAGGACGA-----TCACAACACGACGGTCTTCTGA--AATAAAAACA--CCGAGTAGTAAAGGCCCG--ACCCATA------------TATACGGGCACCCAA-TCTGAATCT
Annot-SacCer/1-37          ----RTGATGA----------AGUGCUGCCAG--CTGA-------------------------------RTGATGA-----------AUUG-----------------CTGA----
SacCer-snR73/1-103         GTTTATGATGATTTCCACATTTCACGACGGTCAACTGC----GTTTTTCGA-ATGTTTATCGATTAACTTTGATGATATTTCGCCTGTGACAGGGCGTGGTA------CTGAGC--
#=GS SNORD35A/1-78 DE U35A Homo sapiens
SNORD35A/1-78              GCAGATGATGTCC---TTATCTCACGATGGTCTGCGGATG--TCCC-------TGTGGGA------ATGGCGACAAT----GCC----AAT---GGC---TTAG----CTGATG--
#=GS SNORD35B/1-79 DE U35B Homo sapiens
SNORD35B/1-79              GCAGATGATGTTT----GTTTTCACGATGGTCTTCAGA---TGCCCA------CGTGGGCA-----CTGCTGAGAAA----GCC---ACTT---GGT---AAAA----CTGATG--
#=GC SS_cons               -----------------------------------------------------------------(((((-------------------------)))))----------------
//