snR60-Z15

../../_images/snR60_h99_igb.png

  • snR60-Z15_intronic-boxCDsnoRNA-in-S30-CNA07960-90nt

  • Within last intron of CNA07960 (CNAG_00819) for 40S ribosomal protein S30

  • Orthologue of yeast snR60, plant snosnR60-Z15

  • Predicted target in 25S rRNA: ggtgAactatgcctg from D’box guide

  • In view of D’ box spacing, in Tremellocytes 25S rRNA the preceding nucleotide will be modified compared to yeast.

  • Predicted target in 25S rRNA: atagGggcgaaagac from D box guide

../../_images/snR60-align.png

>AE017341.1:c2196381-2196292 Cryptococcus neoformans var. neoformans JEC21 chromosome 1, complete sequence
CCTCCGGATGATATCGAAATCAAGCATAGTTCACTCTGATTACCCATGAACGACGCAATTTTCTAAATAG
TCTTTCGCTCCTATCTGATC







  • Image source snR60:

# STOCKHOLM 1.0
#=GF RW van Nues, July 2023
#=GF https://coalispr.codeberg.page/paper
Annot/1-49                       -----------RTGATGA------------CGUAUCAAGUGGCTGA-----------------RTGA-TGA---------------------CAGAAAGCGGGGAUACTGA--------
#=GS snR60-Z15/1-98 DE _intronic-boxCDsnoRNA-in-CNA07960-90nt ncrna 1:2196286:2196383:-1
snR60-Z15/1-98                   --GTCCTCCGGATGATAT--CG-AAATCAAGCATAGTTCACTCTGA-----TTACCC------ATGAACGACGCAATTTTCTAAA-----TAGTCTTTCGCTCCTATCTGATCTTCTCC
#=GS H99/1-90 DE CP003820.1:c2171354-2171265 Cryptococcus neoformans var. grubii H99 chromosome 1, complete sequence
H99/1-90                         ----CCTCCGGATGATAT--CG-AAATCAAGCATAGTTCACTCTGA-----TTACCC------ATGAACGACGCAATTTTCTAAA-----TAGTCTTTCGCTCCTATCTGATC------
#=GS JEC21/1-90 DE AE017341.1:c2196381-2196292 Cryptococcus neoformans var. neoformans JEC21 chromosome 1, complete sequence
JEC21/1-90                       ----CCTCCGGATGATAT--CG-AAATCAAGCATAGTTCACTCTGA-----TTACCC------ATGAACGACGCAATTTTCTAAA-----TAGTCTTTCGCTCCTATCTGATC------
#=GS R265/1-91 DE CP025761.1:109162-109252 Cryptococcus gattii VGII R265 chromosome 3, complete sequence
R265/1-91                        ---TTCCACGGATGATAT--CG-AAATCAAGCATAGTTCACTCTGA-----TTACCC------ATGAACGACGCAATTTTCTTAA-----TAGTCTTTCGCTCCTATCTGATC------
#=GS WM276/1-91 DE CP000286.1:c1891887-1891797 Cryptococcus gattii WM276 chromosome A, complete sequence
WM276/1-91                       ---TTCCTCGGATGATAT--CG-AAATCAAGCATAGTTCACTCTGA-----TTACCC------ATGAACGACGCAATTTTCTTAA-----TAGTCTTTCGCTCCTATCTGATC------
#=GS BulAlb/1-97 DE CAMYTR010000046.1:173631-173727 Bullera alba genome assembly, contig: jcf7180000012139, whole genome shotgun sequence
BulAlb/1-97                      CCCTCTTCATGATGATCCTC---AAATCAAGCATAGTTCAATCAGA-----TTACCC------ATGATCGACATCGCGACCATCTATA--TAGTCTTTCGCTCCTATCTGATC------
#=GS TreFuc/1-95 DE LBGW01000719.1:c4854-4760 Tremella fuciformis strain tr26 contig719, whole genome shotgun sequence
TreFuc/1-95                      -CCCTTCACGGATGATCAACCG-AAATCAAGCATAGTTCAATCAGA-----TCCTTC------ATGATCGACACCATTCCATCAA-----TAGTCTTTCGCTCCTATCTGAAT------
#=GS TreYok/1-93 DE BRDC01000022.1:c784721-784629 Tremella yokohamensis NBRC 100148 DNA, KCNB35TY.22, whole genome shotgun sequence
TreYok/1-93                      --CCTTCACGGATGATCA-ACG-AAATCAAGCATAGTTCAATCAGA-----TCCTTC------ATGATCGACACCATTCCATCTA-----TAGTCTTTCGCTCCTATCTGAAT------
#=GS KocImp/1-96 DE NBSH01000001.1:c1777708-1777613 Kockovaella imperatae strain NRRL Y-17943 BD324scaffold_1, whole genome shotgun sequence
KocImp/1-96                      ---TCTCCCGGATGATTCCACGAAAATCAAGCATAGTTCAATCAGA----TTCACATC-----ATGATCGA-CACAATTCCATCTA----TAGTCTTTCGCTCCTATCTGAGA------
#=GS KwoMan/1-94 DE ASQF01000002.1:c22689-22596 Kwoniella mangroviensis CBS 8886 cont1.2, whole genome shotgun sequence
KwoMan/1-94                      --ATCATACGGATGATA-CAC--AAATCAAGCATAGTTCACTCTGA-----ATAAATC-----ATGAACGAA-CTTTAACTAGAAAT---TAGTCTTTCGCTCCTATCTGAAT------
#=GS KwoSha/1-94 DE NQVO01000052.1:107890-107983 Kwoniella shandongensis strain CBS 12478 scaffold00052, whole genome shotgun sequence
KwoSha/1-94                      --AAACTCCGGATGATC-TAC-AAAATCACGCATAGTTCACTCAGA-----TCAAATC-----ATGATCGACAAACTTTTAGCAA-----ATGTCTTTCGCTCCTATCTGAAT------
#=GS KwoHev/1-98 DE ASQC01000050.1:10935-11032 Kwoniella heveanensis CBS 569 cont2.50, whole genome shotgun sequence
KwoHev/1-98                      -CAATATTCGGATGATACCAC-AAAATCAAGCATAGTTCACTCTGA---ATCAAAATC-----ATGT-CGAACTCAAACTAGAAAT----TAGTCTTTCGCTCCTATCTGATC------
#=GS PapLau/1-95 DE JAAZPX010000063.1:16851-16945 Papiliotrema laurentii strain IF7SW-F4 scaffold243_cov210, whole genome shotgun sequence
PapLau/1-95                      GCCTTTTAATGATGATC-CAC--AAATCAAGCATAGTTCAATCAGA-----TCAAATC-----ATGATCGACACCAAGCATCTAA-----TAGTCTTTCGCTCCTATCTGACC------
#=GS TriCor/1-91 DE JXYL01000001.1:1067210-1067300 Trichosporon coremiiforme strain JCM 2938 scaffold_0001, whole genome shotgun sequence
TriCor/1-91                      ----CTTTGTGATGATA-CAC--AAATCAAGCATAGTTCAATCAGA-----AGTCCATC----ATGATTGACACAATTCCATCT------AAGTCTTTCGCTCCTATCTGAAA------
#=GS TriOvo/1-90 DE WEIQ01000061.1:c55128-55039 Trichosporon ovoides strain 2NF903A scaffold61-size100266, whole genome shotgun sequence
TriOvo/1-90                      --CCTTTAGTGATGATA---CGCAAATCAAGCATAGTTCAATCAGA-----AGTCATA-----ATGATCGACACAATTCCATCT------AAGTCTTTCGCTCCTATCTGA--------
#=GS TriAsa/1-93 DE JAMYHT010000006.1:23050-23142 Trichosporon asahii strain F6008 ctg_6, whole genome shotgun sequence
TriAsa/1-93                      ----TTTAGTGATGATA-CACG-AAATCAAGCATAGTTCAATCAGA-----AGTCCATT----ATGATTGACACAATTCCATCTA-----ACGTCTTTCGCTCCTATCTGAAT------
#=GS TriInk/1-92 DE JXYM01000008.1:c1097341-1097250 Trichosporon inkin strain JCM 9195 scaffold_0008, whole genome shotgun sequence
TriInk/1-92                      --ACTTTAGTGATGATA-CA--AAAATCAAGCATAGTTCAATCAGA-----AGTCATA-----ATGATCGACACAATTCCATCT------AAGTCTTTCGCTCCTATCTGAAA------
#=GS NaeAur/1-93 DE JAKFAO010000015.1:c83542-83450 Naematelia aurantialba strain NX-20 Contig15, whole genome shotgun sequence
NaeAur/1-93                      ---AACTCTGGATGATC-CAC-AAATTCAAGCATAGTTCAATCAGA-----CCTAAAC-----ATGATCGACAACATAGCATCAA-----TAGTCTTTCGCTCCTATCTGAAC------
#=GS CryAmy/1-92 DE MEKH01000002.1:308377-308468 Cryptococcus amylolentus CBS 6273 supercont2.2, whole genome shotgun sequence
CryAmy/1-92                      ----TATTCTGATGATA-CATC--AATCACGCATAGTTCACTCTGA-----AACATAC-----ATGT-TGAACTACAATCTTGAAAT---TAGTCTTTCGCTCCTATCTGAAT------
#=GS TreTag/1-89 DE CAJHEQ010000272.1:16866-16954 MAG: Tremellales sp. Tagirdzhanova-0007 genome assembly, contig: TREM_272, whole genome shotgun sequence
TreTag/1-89                      ---ACTCAAAGATGAACAA--AAACTACAAGCATAGTTCAATCAGA-----CTTTCCC-----ATGATCGACAATCATCCA---------TCGTCTTTCGCTCCTATCTGAAC------
#=GS NaeEnc/1-94 DE MCFC01000001.1:1522840-1522933 Naematelia encephala strain 68-887.2 BCR39scaffold_1, whole genome shotgun sequence
NaeEnc/1-94                      --AAATTACGGATGATCCAC--AAATTCAAGCATAGTTCAATCAGA-----TCTAAAT-----ATGATCGACAACATACCATCTA-----TAGTCTTTCGCTCCTATCTGAAA------
#=GS TreMes/1-85 DE AFVY01000169.1:7034-7118 Tremella mesenterica DSM 1558 strain Fries TREMEscaffold_4_Cont169, whole genome shotgun sequence
TreMes/1-85                      ---CTATCCGGATGAACC-----AAATTATGCATAGTTCAATCAGA-----TTAAATC-----GTGATCGAATACTATCA----------TCGTCTTTCGCTCCTATCTGAAA------
#=GS AegTau-snosnR60_Z15/1-94 DE Aegilops_tauschii snosnR60_Z15 http://snoopy.med.miyazaki-u.ac.jp/snorna_db.cgi?mode=sno_info&id=Aegilops_tauschii300559
AegTau-snosnR60_Z15/1-94         --CATGGTCGGATGATGATCAC----AAGTGCATAGTTCAT-ATGA-----TCAAATC-----GTGA-TTACTTGAACAAAAA-------TAGTCTTTCGCTCCTATCTGACGGCCGTG
#=GS SacCer-snR60/1-104 DE Saccharomyces_cerevisiae snR60 http://snoopy.med.miyazaki-u.ac.jp/snorna_db.cgi?mode=sno_info&id=Saccharomyces_cerevisiae300004
SacCer-snR60/1-104               ---TGTTAATGATGATAACC----AAAGATGCATAGTTCA-ACTGATTGAACATACTATCGAAATGA-AGATAAAAATTTCCATCGAAATTAGTCTTTCGCTCCTATCTGAAC------
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