SNORD49

../../_images/cnag12167_h99_igb.png

  • SNORD49_intronic-boxCDsnoRNA-102nt-in-transcript-as-CNAG_12167

  • in intron of non-coding transcript (2:770568-771021:-1; as CNAG_12167).

  • predicted target in 25S rRNA: cggCtcttcctat

  • orthologue of human SNORD49A

../../_images/snord49a.png

>AE017342.1:c770855-770754 Cryptococcus neoformans var. neoformans JEC21 chromosome 2 sequence
ACCTATGAAGATCATATCCTGAGTATTATAGGAAGTGCCATCTGAATAGCAATCCCCTAACAAGGGGTTAGCTCTGCTG
TTTCCAGGTTCTCTGATACCTTT







  • image source:

# STOCKHOLM 1.0
#=GF RW van Nues, May 2023
#=GF https://coalispr.codeberg.page/paper
Annot/1-35                                   ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------RTGATGA---------------------TATCCTTCTCGGC-CTGA------------------------------------RTGATGA--------------CTGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS transcript-453nt-as-CNAG_12166/1-453 DE with-SNORD49_intronic-boxCDsnoRNA ncrna 2:770568-771021:-1
transcript-453nt-as-CNAG_12166/1-453         CAGAACGAAATTCTTGGATTCTTTTCCTTTCTCTTCTCTTCATTCGTTCTTTATTCAGGTTTTCTATTATTATAATCAACGGACTGCAAGCGCTTACAATAATCGGTGAGTGTTCCTTCTGTCTATTCAATCCCTGCATCATGCCTCCCG-ACATTCTCCACTATCCACCTATGAAGATCATATCCTGAGT-----ATTATAGGAAGTGCCATCTGAATAGCAATCCCCT--AACA------AGGGGTTAGCTCTGCTGT-TTCCAGGTT--CTCTGATACCTTTATCTCCCTACCAGCTTGTTATATATAGCACAAGGCTAGAAAGCTGACGATGGTTTGATAGTTTTAAAATCTCCTGAACATTGTTCAGCTGTTGAAGCGCCGGAAAAGGTTCAATCTGCCTTGCCTTGTTACTTAGATATTAGATTATGAATCATTATTATGTATCTGTTATTCAACTGTCGTTCG
#=GS SNORD49/1-102 DE intronic-boxCDsnoRNA-as-CNAG_12166-102nt ncrna 2:770753:770855:-1
SNORD49/1-102                                -----------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCTATGAAGATCATATCCTGAGT-----ATTATAGGAAGTGCCATCTGAATAGCAATCCCCT--AACA------AGGGGTTAGCTCTGCTGT-TTCCAGGTT--CTCTGATACCTTT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS CNAG_12167/1-198 DE XR_001045446.1 Cryptococcus neoformans var. grubii H99 hypothetical RNA (CNAG_12167), ncRNA
CNAG_12167/1-198                             -----CGAAATTCTTGGATTCTTTTTCTTTTCTGTTCTC---TTCGTCCTTTATTCAGGTTTTCTATTGTTACAATCAACAGATCGCAAGCGATTACAATAATCG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTCAAAGCCTCGTCTAAATATTTTTCAGCTGTTGAAGCGCCGGAGAAGTTCAATCTGCTTTGCCTTGTTACTTAGATATTAGATTATCTGTGAACCACTA-----------------------
#=GS unspliced-CNAG_12167/1-425 DE CP003821.1:c753137-752713 Cryptococcus neoformans var. grubii H99 chromosome 2, complete sequence
unspliced-CNAG_12167/1-425                   -----CGAAATTCTTGGATTCTTTTTCTTTTCTGTTCTC---TTCGTCCTTTATTCAGGTTTTCTATTGTTACAATCAACAGATCGCAAGCGATTACAATAATCGGTGAGTGTTCATTCCGTCTGTTCAATGCCTGCATCATGTCATCTCAACATTTTCCGCCATCCACCTATGAAGATCATATCCTGAGTA---ATATATAGGAAGTGCCATCTGAATAGCAATCCCCT--AACA------AGGGGTTAGCTCTGCTGT-TTCCAGGTT--CTCTGATACCTTTATCTCCCTATCAGCTTGTTATTTATAGCAGAAGGCTAGAAAACTGACGACTTGTTTGATAGTTTCAAAGCCTCGTCTAAATATTTTTCAGCTGTTGAAGCGCCGGAGAAGTTCAATCTGCTTTGCCTTGTTACTTAGATATTAGATTATCTGTGAACCACTA-----------------------
#=GS H99/1-104 DE CP003821.1:c752978-752875 Cryptococcus neoformans var. grubii H99 chromosome 2, complete sequence
H99/1-104                                    -----------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCTATGAAGATCATATCCTGAGTA---ATATATAGGAAGTGCCATCTGAATAGCAATCCCCT--AACA------AGGGGTTAGCTCTGCTGT-TTCCAGGTT--CTCTGATACCTTT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS WM276/1-99 DE CP000287.1:1042777-1042875 Cryptococcus gattii WM276 chromosome B, complete sequence
WM276/1-99                                   -----------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCTATGAAGATCATATCCTGAGT-----ATTATAGGAAGTGCCATCTGAATAGCAATCCCCTT--AC------AAGGGGTTAGCTCTGCTGT-TTCCAGGTT--CTCTGATACC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS R265/1-102 DE CP025762.1:1013022-1013123 Cryptococcus gattii VGII R265 chromosome 4
R265/1-102                                   -----------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCTATGAAGATCATATCCTGAGT-----ATTATAGGAAGTGCCATCTGAATAGCAATCCCCTT--AC------AAGGGGTTAGCTCTGCTGT-TTCCAGGTT--CTCTGATACCTTT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS NaeAur/1-107 DE JAKFAO010000001.1:1038115-1038221 Naematelia aurantialba strain NX-20 Contig1, whole genome shotgun sequence
NaeAur/1-107                                 -----------------------------------------------------------------------------------------------------------------------------------------------------------------------ACATATGACGATCCCATCCTGAG---TATACTATAGGAAGTGCCATCTGATATGCGGCT-------TC-----------GGCAGCCATGCTGT-TTCCAGGTT--CTCTGATCTTCCCATCGTTTCCCTAC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS CutDer/1-135 DE JAMALL010000009.1:c291088-290934 Cutaneotrichosporon dermatis strain M4303A ctg_9, whole genome shotgun sequence
CutDer/1-135                                 --------------------------------------------------------------------------------------------------------------------------------------------------------------------TTGAAGCATGACGAAATCATC-TGTGA-----ATAATAGGAAGTGCCATCTGCATGTTCCCTCTA---GCAAT-----AGAGGG---CTATGCTGT-TTCCAGGTT--CTCTGATCAATCCCCCCCTCTACGCCGTTGTCGTGACGCTAACAGAG-------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS SaiPod/1-101 DE RSCD01000007.1:c1050269-1050169 Saitozyma podzolica strain DSM 27192 scaffold_7, whole genome shotgun sequence
SaiPod/1-101                                 -----------------------------------------------------------------------------------------------------------------------------------------------------------------TCCCCCTTTCATGACGATATCTCC-TGAGT----ATTAATAGGAAGTGCCATCTGTATACGCGGT-------TC------------GCCGCTATGCTGT-TTCCAGGTT--CTCTGATCTTCTCCACG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS CryWin/1-107 DE AWGH01000005.1:86702-86808 Cryptococcus wingfieldii CBS 7118 supercont1.5, whole genome shotgun sequence
CryWin/1-107                                 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCAGTGATGAACTTATCCTGAGTAC-AATATATAGGAAGTGCCATCTGCATCAGCGAGCCC----TC---------GGGCTAGCTATGCTGT-TTCCAGGTTAAAACTGAAACACACTCTTC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS KwoHev/1-100 DE ASQC01000083.1:c63349-63250 Kwoniella heveanensis CBS 569 cont2.83, whole genome shotgun sequence
KwoHev/1-100                                 --------------------------------------------------------------------------------------------------------------------------------------------------------------------AATAACAATGATGAACCCATCCTGAGTAT---TATATAGGAAGTGCCATCTTATGCGATTCC------TTC--------GGGATTAGCGGTGCTGT-TTCCAGGTT--CTCTGAAGATCT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS KockImp/1-106 DE NBSH01000002.1:c761989-761884 Kockovaella imperatae strain NRRL Y-17943 BD324scaffold_2, whole genome shotgun sequence
KockImp/1-106                                -----------------------------------------------------------------------------------------------------------------------------------------------------------------------GTTTATGACGATTCCATCCTGAGTA---TACAATAGGAAGTGCCATCTGCATTAGCAAACGTG--TCT---CTCGACATCTTAGCTATGCTGT-TTCCAGGTT--CTCTGATTCTAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS DroMel-U49/1-80 DE Drosophila_melanogaster snoRNA:U49
DroMel-U49/1-80                              ----------------------------------------------------------------------------------------------------------------------------------------------------------------------TGCACATGATGATAATTTGTCTTCTT------GATAGGAAGTGCCAACTGA--------------CACATAA---------------ATGAAGCTA--GTTTAACCCTCTGAAAGCA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GS HomSap-SNORD49A/1-71 DE Homo_sapiens SNORD49A
HomSap-SNORD49A/1-71                         -----------------------------------------------------------------------------------------------------------------------------------------------------------------------TGCTCTGATGAAATCACT-------------AATAGGAAGTGCCGTCAGA-------------AGCGATAA---------------CTGACGAAGACTACTC-CTGTCTGATT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
HomSap/1-72                                  -----------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTCCTGATGATACTTGT-------------AATAGGAAGTGCCGTCAGA-------------AGCGATAA---------------CTGACGACGTCTAATGTCTATCTGACC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GC SS                                      ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------((((((((---------------))))))))---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
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