2024-03-30 00:16:33, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_031793299 5265 bp mRNA linear VRT 09-DEC-2019 DEFINITION PREDICTED: Oncorhynchus kisutch testis and ovary specific PAZ domain containing 1 (topaz1), transcript variant X4, mRNA. ACCESSION XM_031793299 VERSION XM_031793299.1 DBLINK BioProject: PRJNA378663 KEYWORDS RefSeq. SOURCE Oncorhynchus kisutch (coho salmon) ORGANISM Oncorhynchus kisutch Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Protacanthopterygii; Salmoniformes; Salmonidae; Salmoninae; Oncorhynchus. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_034190.2) annotated using gene prediction method: Gnomon. Also see: Documentation of NCBI's Annotation Process ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Name :: Oncorhynchus kisutch Annotation Release 101 Annotation Version :: 101 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 8.3 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..5265 /organism="Oncorhynchus kisutch" /mol_type="mRNA" /isolate="150728-3" /db_xref="taxon:8019" /sex="female" /tissue_type="muscle" /dev_stage="juvenile" /country="Canada: Vancouver" /linkage_group="LG17" /note="double haploid" gene 1..5265 /gene="topaz1" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 long SRA read, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 3 samples with support for all annotated introns" /db_xref="GeneID:109908619" CDS 510..5093 /gene="topaz1" /codon_start=1 /product="protein TOPAZ1 isoform X4" /protein_id="XP_031649159.1" /db_xref="GeneID:109908619" /translation="
MLPSTGRVKLNRSVLKVEGNNGLPSVPRRRRPFKVLYSPTGDTHGDPNSISKTLECSSQNEENSELKTKDDFVLGYTESTVLKSENHNFPPYLGTEKGHLASETAVGKTTAVPADSGEQRSPPLTECEDIDRSPIVTRHRPKPPLSSPSCPQRSVRRVVKTLCCALCGEIKYTPPKRRKLTRVEPVGVTGRGRAIVLSRVVGLEQPTVRVKTRKNFTSTIKAPKKLVIWIGRYPKVKLCDVAQVCDVSVGGFSCLLPAQLLTSKVVHCFKWDYRSKVGLLGPSCCSRGSHGSETTWERISRKKLHHSSQCGKNGQLLTQTEIHQCMHTGAHRLTESNRSASLAASDRGMSEASTNGFACLSLGKQQVSRGSSGAGTHDRGILEDSGAGSDDVETGKPVAKRMRLGDVHGDLMEQKHSSPSEPELGPGIAITSLEDSGTMSEMPCEVPPHLHTSHVSRSHSNATDAPLRSHHFMTEDGGWRGGPGGGDRSLESPANGTLSPWSMENGVGVDPPSDSDTEDQDLFSCRRVVAYIKRLHLSCARTYLSWPFPKPDSAQSLSVTSSVLNANGPLTPPAESVSSAVGCVNGALVNGYGDSLMRAERTRVLTSHCTLTEYTPQTSYQVYAHRNGMQGEGNMMEEKDMSNGREGGGEEDESMTQFSLSPDTSSKVYPSHPLCHKKPQSQLRTRGLHRNKASISPPPKAPTISALLTPPKNHSETDPILSVSSNLSQTDTDTVSCLSPPKTDSVSTFPPAKVSGGGETAYTPPPIGVGSDIATAAFLLFSSASQNIETSPPPSSPTPSSFLTPSSPRRKDEGGAMFNATSSPSAVDSKTDTSHSNSFHSAESSPLPPDFSCLSAESSFLSSSSSLLPQEKRKAEGVEVQSREGDEMKGEAAASGELKVLVLPGSESSSPEKQEHQRPEQKSTQGGSSLGKPKEGEAVVATISNLAPGILGGQTPMLCITRLMLQTQSYSEEDDDFVDQKEKLSSGVGVGTQAQASSTDEDDGTCGEEGTLEPVRTQPCTDEDDVDHHNQSTSCTKVTSENQEAGTPSSSGSHTQHQEVEVRAGSKVKLASDPKAHLLDEFTAYEQDILLVDVLLDDPELFGSLPQDLEPMLGSTRGRRAPRARTTIGAGRALLLTGAGPSWATEKSSTTGTDGPPGFKTDQRRIIHFKDEESSGRSWRPVASSNPMPAVVHSNSWPPTVHALHPDQGGTDYNYSPMKAEISERAQAFQSLNSFKSTLPYLMTGDSWCNEHTASCKDPAAADTGPQRQFDSYCKYYFSMSDCFHKTCWFLHVPKRGDEKFCVETVLRFVRSSNPVCLQRAVSVFTSYYQFSPPGVYHTPLVLNSLLAALLKAGFLSDIITVLHVSTAHNILPSPAFLLALFDYVGERDQSILPELIQLTSKMVDAGLGLNVDQCERVLHMFLQSPQYHPADSPENYTTKPGNHRSMNTDAPTPEALSLAHALVELCSQQEDWGRLGVVFRSICHSHRSLVDLQHFSGCVAIALLEGDKDRLALPFASFTETVYQET"
misc_feature 4899..>5084 /gene="topaz1" /note="Putative aspartate racemase; Region: Asp_Glu_race_2; pfam14669" /db_xref="CDD:434113" ORIGIN
agctccgctgcaacaggtgtgatttaaatgagaagtgaggcagggaaagctagcctgacaggctctacataacattttcaattaacgagaacgtttgaaaccagagttgtttgtaagaataatttgtgtaaacaagtcgtgtagggctactaatttcggtgacattcttatcacgtagccctactaattctgcatttgcatcgaaattgaatggagcgattttcgcctactagccagcgtctgaatttgacatttgtgttatttatttatcatccgataaatagttatagcccgtgcacggtatttcccgttgcctaagttaaactttgtttattttattagtgggaagagacaattttggtttacattttttctttcaaagttagcttttgaacagattctaggtttatcaaactctaataacgcattggcagacaaaaagtaaagaaaaaacggtgcaaataaaatatttttcgtgttcgctgataaaatagctctgaaatgcgaccatgctcccatctaccgggagggtcaaattaaatcgaagcgtgctgaaagttgaaggcaataatggactgccaagcgtgcccagacggagacggccattcaaagtgttgtactcgccaactggcgatacacatggcgatcctaacagcatcagtaaaactctggaatgctcttcacaaaacgaggaaaacagtgaattgaaaacgaaggatgattttgttttggggtacactgaatccacagttttgaaatccgaaaatcataatttccccccatacttggggacagaaaaggggcaccttgcgagtgagacagctgtcggaaaaacaactgcggtgccagcagacagtggggaacagaggtcaccaccattgactgaatgtgaagatattgataggagtcccattgttacacgccatcgccccaaaccccctctcagctcgccatcctgtccacagcggtcagtcaggagagtggttaaaaccttgtgctgcgccctgtgtggagaaattaaatacacgccccctaagagaaggaagctgaccagggttgagccagttggagtgacaggcagaggcagggccatcgtcctcagcagagtagtagggcttgagcagcctacggtcagggttaaaaccaggaagaatttcacctccaccattaaggcccccaagaagctggtgatctggatagggaggtaccccaaggtcaagctctgcgatgtagctcaagtatgtgacgtctcggttgggggcttttcctgcctgctgccggcccaactcctgacttccaaagtagtgcattgtttcaagtgggactatcggagcaaagttggtctgttagggcctagttgttgcagcagagggagccatgggagtgagacgacctgggagcgcattagtagaaagaagttgcatcactcttctcagtgtgggaagaatggtcagcttttgacgcagactgaaattcaccagtgcatgcacacgggggcgcacagattgactgagtcaaatcgttctgcatctcttgctgcctcggatcgcgggatgtctgaagcctccaccaatggttttgcttgtctctcactaggtaagcagcaggtgagcagggggtcaagcggggctggaacgcatgacagaggcattcttgaagactctggagcaggaagtgatgacgtagaaacaggaaagccagtcgctaagcggatgagattgggtgatgtccacggagacctaatggagcaaaaacattctagtccaagtgaaccagaactgggtcctgggatagctatcacttcccttgaagacagtgggacgatgtcggagatgccatgtgaagtcccgccgcatttacacacaagtcatgtcagtcgtagtcatagcaacgctacagatgctcctctgagatcacaccactttatgacagaggatggaggctggaggggagggcccgggggaggtgacaggtcactggagtcccctgccaacgggacgctgtctccctggtccatggagaacggagtgggagtagaccccccctctgacagcgacactgaggaccaagacctgttctcctgtcgtagagtggtggcctacatcaagaggctgcacctgtcctgtgcacgcacctacctctcctggcccttccccaaacctgattctgcacagtcactctctgtgacatcatcagtcctcaacgcaaatggaccactgacacccccagcggagtctgtgtcatcagctgtgggctgtgttaatggagccttggtgaacggatatggagactcactgatgagggctgagagaaccagagttctcacctctcactgtacactcactgaatacactccacagacaagctaccaggtctatgctcataggaatgggatgcagggagagggaaacatgatggaagagaaagacatgagcaatggaagagaaggaggaggagaagaggatgagagcatgacccagttttcactctctcctgacacttcaagcaaggtgtacccatcccatcctctctgtcacaagaagccacagtcccaactcagaactaggggtctccatcgcaacaaagcttccatatcccctccacctaaagctcccaccatctccgccctcctcaccccacccaaaaaccacagtgaaactgatccaattctttcagtttcctccaacctttctcaaactgacacagacactgtttcttgcctctctccacccaaaactgactctgtctcaaccttccctccagctaaagtcagtggcggtggggagacagcctacaccccccctcctataggcgtcggtagtgacatagccactgccgcctttctgctgttctcatctgcatcccaaaacatagagacatccccaccaccctcctctcctactccctcctcctttcttactccctcctcccctcggaggaaggatgaaggtggggctatgttcaatgcaacatcctccccatcagctgtggacagtaagaccgacacgtctcactcaaactcctttcactcagcagagtcatcccctcttccaccagatttctcctgtctttcagctgaatcctcctttctctcatccagctcctcacttctgcctcaagaaaaaagaaaggcagagggagtggaggtgcagagcagagagggagatgaaatgaaaggagaggcggctgcgagtggagaactgaaggttttggttttaccaggcagtgagtcctccagtccagagaagcaggagcaccagcgtccagagcagaagagcacacaggggggctcgtcgcttggcaagcccaaagagggagaggctgtggtggccacgatcagtaacctcgcccctgggattcttggaggtcaaacaccaatgctgtgcataacacgcctgatgctgcagacacagagctactcagaagaggatgatgactttgtagaccagaaagagaagttgtccagtggagtaggtgttggaacacaggcccaggcatcctccactgatgaagatgatggtacatgtggtgaagagggaacactagagcctgttagaacccagccctgtactgatgaagatgatgtcgatcatcataatcagtccacctcctgtactaaggtcacgtctgagaaccaggaagccggcactccttcctcttccgggtcacacactcaacaccaggaagtagaagttagggcagggtcaaaagtcaagctggctagtgaccccaaagctcacctcttggatgagttcacagcctacgagcaggacatcctgcttgtggatgttctcctggatgacccagagctgtttggcagcttgcctcaggaccttgaacccatgctgggttcaaccaggggacgaagggcccctagagccaggaccaccattggggcagggagagccctactactcacgggtgcaggtccctcatgggccactgagaaaagctccaccacgggtacagatgggcctcctggttttaagactgaccagagaagaattatccactttaaagatgaggagagttcaggacgatcttggagacctgtagccagttccaaccctatgcctgccgtggtccacagcaacagctggccccctactgtccacgcgttacatccagaccagggtggaactgactacaactacagtcctatgaaggcagagatctctgagagggcccaggccttccagtctctgaactcatttaagagcacactgccttatctgatgactggtgactcatggtgcaacgaacatacagcctcatgtaaagacccagcggcagcagacaccggccctcaaagacaatttgacagttattgcaagtactatttcagcatgtcggactgtttccataagacctgttggttcctccatgtgcccaagagaggagacgagaagttctgtgtggagacggtgctgaggtttgtcaggtcttccaaccctgtctgtctgcagagggcagtgtcagtgtttacgtcgtactaccagtttagtcctccaggtgtctaccacacccctctggtcctgaattctctcctggctgctctgctcaaagctggctttctgtctgacatcatcacggtgctgcacgtcagcaccgcccacaacatactgcccagtccagcgtttctcctggctctgttcgactatgtgggagagagagaccaatccatcttacctgaactcattcaactcacctctaagatggtggatgcaggcttggggttaaatgtggaccaatgtgagcgtgtcctacacatgttccttcagtcgccacaataccacccagcagactcacctgagaattacacaactaaacctggcaaccacaggtcgatgaacaccgacgctcccactcctgaagcgctgagtctggcccatgctctcgtggagttgtgttcccagcaggaggactgggggaggttgggtgtagtcttccgctccatatgccactcccacagaagccttgtcgacttacagcacttcagcggctgcgttgccatagcgctgctcgagggggacaaagacagactagccctgcccttcgcctccttcactgagacagtgtaccaggagacctaggactgggatgatattatactgaacaaaaatataaacacaacatgcagtgttggtttcatgagctgaaataaaagatcccagaaatgttccgaatgcacaaaaaatggatttctccacttggtgtgaacatcacatccctgttagtgaacatttggcataggagaagataatc
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If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
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