2024-04-26 07:17:21, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_023986851 4248 bp mRNA linear VRT 23-FEB-2018 DEFINITION PREDICTED: Salvelinus alpinus NRDE-2, necessary for RNA interference, domain containing (nrde2), transcript variant X1, mRNA. ACCESSION XM_023986851 VERSION XM_023986851.1 DBLINK BioProject: PRJNA433373 KEYWORDS RefSeq. SOURCE Salvelinus alpinus (Arctic char) ORGANISM Salvelinus alpinus Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Protacanthopterygii; Salmoniformes; Salmonidae; Salmoninae; Salvelinus. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_036843.1) 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 :: Salvelinus alpinus Annotation Release 101 Annotation Version :: 101 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 8.0 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..4248 /organism="Salvelinus alpinus" /mol_type="mRNA" /isolate="IW2-2015" /db_xref="taxon:8036" /tissue_type="liver" /dev_stage="juvenile" /collected_by="Jon Lucas" /linkage_group="LG4q.2" gene 1..4248 /gene="nrde2" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 14 samples with support for all annotated introns" /db_xref="GeneID:111963423" CDS 525..4001 /gene="nrde2" /codon_start=1 /product="protein NRDE2 homolog isoform X1" /protein_id="XP_023842619.1" /db_xref="GeneID:111963423" /translation="
MRLFTRRAINMALFPAFAGLSNTKAENAPKELEWLSNQSFRTDDALSLHQRATEKANETQSAETSRLVIPEREDKNDVQSNKKKKKEKKKKKKKKHKKKSGEPSPASSGSDSDTIYPSDLLKKAESTPPSEEAQFQVEGSFVWLDDLQTPTDRPFCVDRRADRANWEYKSLYRGDIARYKRKGSSSLGLDLRSQAVSWAESGPEKKRVDRRQRPNRYFSPTVRQLLMSDGKPTLPRPPQECTTTTLPFIPVPSCLEGEAEGGASAKGQGSWVNPLGVYDSSTSLWLQGKGKAEHGXAEEQPSTPRDNAAVMLAERVEDFNRRLRETPTDTHTWLQFVLFQDEVAGAPGVFGDISENETERRKRSVXATLEKKVAILDRAVENNPSCVELKLERLRLCRELWEPAALLKEWKKLVFLHPNSAPLWRKYLLFMQSHFSTFSVSKVNTVYGKCLSTLAAVQDGSMVSHQVLPGTDEHMXAIFLQQCHFLRQAGHSEKAVCLFQGLLDFTFFKPDTVKDLPTRQQVEFFEPFWDSGEPRVGERGARGWRAWMTQHERGGWLQPSEQDDGDEEDQEELEVKDKTWPKWRIWLDVETSREAIHWLPWRPDKTKGQSVEDCEDPDRQVLFDDIGPSMIRLVRPELQLCLLLSFLHFLGLPADTSCYSAPSCSLLLDDQALLGDVHHPDSPLTSYALPVPGVSPVGHMTSLQGARRGVGLCKQGEEFVDNVFQMVLPLFSAQERAVLSLHWIQYEKLKVLRCXRGRNKKRVKSQGKRSKRXAKRLLKEPENRGRLSLWREYAHLEWLLGNLDEAHKVLDTALGLGVAGGLADPALCDLCLLYAQLEVEEAWRRDTGGAGTIVRTAMXSPAVYILTKLAEGSSYAPFLGQLAPVAVLKARKAYEQAVVSSLPGLEEGAAGQGQSKNSRRVKGLVGCYALFQYLTVGVDAADAVYNLXRKRLEQHSSLSAQESASSEVMCDIQTLSSVSECEALAVQQVALLRYHTSTNVYPLSHIRLALTSALAHFASSTSLWQLYVQVENRYHSAGRARRFFHSVTKASASVVPRLFAISAEQQRKQLVDSVQRSGCYGDTLSTLPENGLSNRIRTLFENAIATEHGVHCPLLWRMYMNFLVSEGRWRSGKRDLLQGSTGRPMGQGFIHGRGATLP"
misc_feature 984..1283 /gene="nrde2" /note="MTR4-interacting domain (MID) found in nuclear exosome regulator NRDE2 and similar proteins; Region: NRDE2_MID; cd22200" /db_xref="CDD:412062" misc_feature order(984..1010,1017..1022,1032..1037,1041..1043, 1047..1091,1098..1106,1110..1118,1140..1148,1164..1169, 1173..1178,1185..1205,1224..1235,1254..1283) /gene="nrde2" /note="MTR4 binding site [polypeptide binding]; other site" /db_xref="CDD:412062" misc_feature 1479..2477 /gene="nrde2" /note="necessary for RNA interference; Region: NRDE-2; pfam08424" /db_xref="CDD:429988" ORIGIN
ttatccaaattctgcatgctgttttgtgattataaaaaaactcaaacctaataaggtgtcatatttacaaacgaaacagtaaatacaaaaatctgtaaatgattgacatacataggcacacaataagttgtgacattggctttggtcatgtggccaacagtgcagctgtagtataattcgacacattccggtctgtccagtgactactcactgcatcccgtgcctatgtatttaacggtttctgatgcgctcgagctggaacatggcgctctactttatgcaacgcactgttttatctctgcggaagaatactcaaatacactggccagtgtctgttgacgctggagaaattgcagttgtttttgagacggcgcttctcattggatacagtggacctgcaatattctgctcattgtacgggagcccaggattggctacgttggatctgcaatgcgtcaagcaatggcgcctaatattacccgagtggtttaggaaaacggcgcgttcgagatgacgtcatattcatgcgactgtttacacgcagagctatcaacatggcactatttccagcttttgcaggattatcaaatacaaaagctgagaatgcacctaaagaactagaatggctgagcaatcaaagtttccgcactgacgacgctctttctcttcaccaacgagctactgagaaggccaacgaaacacaatcggcagaaacaagcagactcgttataccagagagggaggataagaatgacgtccaatccaacaagaagaaaaagaaggagaagaagaagaagaaaaagaagaagcacaagaagaagagtggagaaccctctccagcaagcagtggctcagattcagatactatctaccccagtgacctcttaaaaaaggctgagagcactcctcccagtgaggaggcgcagtttcaggtggaggggtcttttgtgtggttggatgacctccagacccccaccgatcggcccttctgcgtggacaggagagcagaccgtgccaactgggagtacaaatcactttacagaggagatatcgctaggtacaaaaggaaaggctcttcctctctgggtttggacctgcggtctcaggccgtgagctgggctgagtctggcccagagaagaagagagtggacaggagacagagacccaaccgctacttctcccccaccgtccgccagctgctgatgtctgatggcaaacccacyctgcccagacctccacaagagtgcaccaccaccaccttacccttcatccctgtgccctcctgtctggaaggtgaggcagaggggggtgcctctgccaaaggccagggctcctgggtcaaccccctgggggtgtatgactcctccacctccctgtggctccaggggaaggggaaggcggagcatggcayggcagaggaacaaccttctactcccagggacaatgctgccgtcatgctggctgaacgggtggaggacttcaacaggaggctgagggaaacccccacagacacacacacctggcttcagtttgtcctcttccaggacgaggtagctggggcgcctggggtgtttggtgacatctctgagaacgagaccgagcggcggaagaggtcagtgkgggcgacgctggagaagaaggtagccattttggatcgagcagtggagaataacccgagctgcgtggaactgaagctggagcgactgcggctctgtagggagctgtgggagccggcagccctgctgaaggagtggaaaaagctggtgttcctgcaccccaacagcgcccccctgtggaggaagtacctgctgttcatgcagagccacttcagtaccttctccgtgtcaaaggtcaacacggtatacgggaagtgtctgagcacgctggcggcggtgcaggatgggagcatggtttctcaccaggtgctgccgggcactgatgaacacatgktggccatcttcctccagcagtgtcatttcctcaggcaggctggccactcagagaaagctgtgtgtctgttccagggcctactggacttcaccttcttcaagccagacactgtcaaggacctacccaccagacaacaggtggagttctttgagccattctgggacagtggggagccccgtgtcggggagagaggggccaggggatggagagcctggatgacccagcaygagagagggggctggctccaacccagtgaacaagatgatggagatgaagaagatcaggaggaattggaggtgaaggataaaacctggcccaagtggaggatctggttggatgtggagacgtcacgtgaggccatccattggctgccgtggaggccggacaaaaccaagggccaatcggtggaggactgtgaggacccggaccgacaggtgctgtttgatgacattgggccgtctatgatccggcttgtccgcccagaactccagctatgtcttcttctgtccttcctgcacttcctgggtctgcctgctgacacttcgtgttacagcgccccctcctgtagcctgctgctggatgatcaggctctactgggggatgttcaccaccctgactcaccactgacctcctatgccctccctgttcctggggtcagccccgtgggtcacatgacctccctgcagggtgccaggaggggggtggggctgtgtaagcagggggaggagtttgtagacaacgtgttccagatggttctgcctctgttctctgctcaggagagagctgtcctctcactacactggatccagtatgagaagctcaaggtgctgaggtgcgrgcgcggcaggaacaagaagcgtgtgaaatcccaggggaagaggagcaagcgcrtggccaagcgsctgctgaaggagccagagaaccggggccgcctcagcctgtggagggagtacgcccacttggagtggctgctagggaatttggacgaagcccacaaggtgttrgacacagccctgggactgggcgtggcaggagggctggcagaccctgccctgtgtgacctctgcctgctctacgcccagctggaggtggaggaggcctggcgaagggatacgggcggggcagggacgattgttaggaccgccatgtrttcaccagcggtctatatcctcaccaagctagcagagggtagttcgtatgcccccttcttgggacagttggctccagtggccgtgctgaaggccaggaaggcctatgagcaggctgtggtgagctccctgcctgggctggaggagggggccgcggggcaggggcaatccaagaactccaggcgggtcaaaggtctggtggggtgttacgccctattccagtacctgactgtgggggtcgatgctgctgatgctgtctacaacctgmccaggaagaggctggagcaacactccagtctgtcagcccaggagtcagctagcagtgaagttatgtgtgacatacagacactgagctctgtctcagagtgtgaggccctggctgtccagcaggtggcgctgctgcgctaccacaccagcaccaacgtytacccacttagccatatcagactggcgctgacctcggccctggcccactttgcctccagcacttctctgtggcagttgtatgtgcaggtggagaaccgctaccacagcgccggcagggctcgccgcttcttccacagcgtgaccaaggctagtgccagtgtcgtgccacgcctgttcgccatcagcgcagagcagcaaaggaagcagctagtggactctgttcagaggtctggttgttatggcgacaccctctccaccctgccagagaacggcctgagcaatcgtatccgcacgctgtttgagaatgccatagcaacagagcacggggtccactgtccgttgctgtggaggatgtacatgaacttcctggtgtcagagggaaggtggagaagtgggaagagggatcttctacaaggctctacaggacgtcccatgggccaagggtttatacatggacgcggtgcaactcttccctgagcacgtgcaggagttcctggacctgatgacagagaaggagctcagactgagggttcccatggaggaggtggacatactgctggaggactgaggctctaaaacccttcccacagtgggcctggcttcctcagactctccactgtggatacccgaagttgtgcagtgaccaatagaacaaccaagtgtcctcatgaagaagaccattttacttttcaaacagacgtgtgaataaatgatgttacactta
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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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