2024-04-20 14:27:01, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_020713691 3849 bp mRNA linear VRT 15-FEB-2018 DEFINITION PREDICTED: Oryzias latipes NRDE-2, necessary for RNA interference, domain containing (nrde2), transcript variant X2, mRNA. ACCESSION XM_020713691 VERSION XM_020713691.1 DBLINK BioProject: PRJNA183868 KEYWORDS RefSeq. SOURCE Oryzias latipes (Japanese medaka) ORGANISM Oryzias latipes Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Neoteleostei; Acanthomorphata; Ovalentaria; Atherinomorphae; Beloniformes; Adrianichthyidae; Oryziinae; Oryzias. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_019880.2) annotated using gene prediction method: Gnomon, supported by EST evidence. Also see: Documentation of NCBI's Annotation Process ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Name :: Oryzias latipes Annotation Release 103 Annotation Version :: 103 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..3849 /organism="Oryzias latipes" /mol_type="mRNA" /db_xref="taxon:8090" /chromosome="22" gene 1..3849 /gene="nrde2" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 ESTs, 2 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 27 samples with support for all annotated introns" /db_xref="GeneID:101159398" CDS 53..3589 /gene="nrde2" /codon_start=1 /product="protein NRDE2 homolog isoform X2" /protein_id="XP_020569350.1" /db_xref="GeneID:101159398" /translation="
MALFPAFSEVSENKIENSTEEFDWLKNKSFPTGDALNIQARFLKNSEGLNEREASVGRDVSSTEEKARGDRNVPPKTRKSEKKRKKKKKHKKRNGGDSSSSGTDSDTIYPSDLKKKEEDNGQHPAPLTSQFSWLDDLQSSTKQMFCVDCKPDPANWTYKSLYRGDVARYRRKGTSSLGLDCRKQEISWEDSKKKRKQKGDGGADRYFSTASRHLLRSEPSVSVKPATPDSSEGNTSTSFLPLDNPERDNREQETSERVQTSSVNPLGIYDSSTALWLQGKGRQDEQKQITQVEESAAHVAGKTEEFNRHLREHPSDTQQWLQFIQYQDELGASVFGGNEGLQGSESSECKSKSSYKAVLEKKLSIAERAVAINPTCISLQLERLRICQELWEPSVLAKEWKKLVFLHPNSAPLWRRYLLFIQSYFSNFTVSKVNSAYGKCLSTLSAVLDGSMVSHSALPGTEEDMLDLFIQQCQFLRQAGHSEKAISLFQAMMDFTFFKPDSVKKLSTRQQVEFFEPFWDSGEARVGEVEARGWKAWMLQQERGGWLPPPTEEEDKEEEDEEEVKNRSQAKWKVWLDVESLREAAHWLPWRPDKAKGQTEEDCDDPDRQVLFDDIGSSLICLSSPELRLRLLLYFLSFLGLPVASILSEVSQPSLFLENLSVLTQGKEPQRPLTSYDIPDLGVDSVGHMTTLQGKRKWVGLGRQGERFLTNMLSMLQPVLPPHHRASLTLSLLQYEKLKVLRSLHSGNKKRLHSQGKSSKRVVKRLLKEPDNRSSLILWREYAHLEWLLGNLVEARKVFSTASAMGGVKDLSGAALCELCLLWSQLELEEAAKEQSRLTDVTTSPAVCVLTKLAEGTSASFPFSQSLSPVSILKARKSYEQALAASLSDLEQSIKNSQPDTKDQEKLPEEKLRLRGLVGCYALFQYLTVGVHAAVSVYSLARENMEQLYHTLAPEKPLSSNEKANLTRAEAGNCEAGSRPQNHSYVSQLAHECEVLAVQQAALLKYHSSNSVFPLATLRQTLTSAISSWPSCALLWGIYVQVENRYHSAGRARRFFHSVTRDSGGVVPRLFAIVAEQQRKQLVDSAQRSCHYNEALPILPENGLGNRIRGLFETATKTEDGAHCPLLWRMYIHFLVSDGKVDKARAIFYKALQNVPWVKVRVCIWMRSSCSRSICRSS"
misc_feature 485..781 /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(485..508,515..520,530..535,539..541,545..589, 596..604,608..616,632..640,650..652,662..664,668..673, 680..700,722..733,752..760,764..781) /gene="nrde2" /note="MTR4 binding site [polypeptide binding]; other site" /db_xref="CDD:412062" misc_feature 965..1930 /gene="nrde2" /note="necessary for RNA interference; Region: NRDE-2; pfam08424" /db_xref="CDD:429988" ORIGIN
cgtcatattcgtgcgattatttactccttgacgcataatctcttgcgacatcatggctctgtttccagctttttctgaagtatcagagaataaaatagaaaattcgactgaagaatttgattggctgaagaataagagttttccaactggggatgcgctcaacattcaagctcgttttctaaagaacagcgaagggctgaatgagagggaagcaagcgttggaagggatgttagttccactgaagagaaagcgagaggagatcgaaatgttccccctaaaacgaggaaaagtgaaaagaaaaggaaaaagaagaaaaaacacaaaaagaggaatggaggggattctagcagcagtggaacggactctgacacgatataccccagtgacctaaaaaagaaagaggaggataatgggcaacatcctgctccattaacaagtcaattctcctggttggatgaccttcagtcatctacaaagcagatgttctgtgtggactgtaaacctgatccagccaactggacttacaagtctctgtacagaggcgatgtagccaggtataggaggaaagggacctcctctttgggtctggattgccggaagcaggagataagctgggaggactcgaagaaaaaaagaaagcagaaaggagatggaggagcagacagatatttttctacagcaagtcggcatctgctcaggtctgaaccatctgtttcagtgaagcctgcaactcctgacagcagtgaaggaaacacctcgacttccttcctccccctggataatcctgagagagataatagagagcaagagacaagtgagagagtgcagacgtcgtctgtaaaccctctggggatatatgactcgtccacagctctgtggttgcaaggtaaaggacggcaggacgagcagaagcagatcacacaggttgaggagagcgctgcacatgtagctgggaagactgaggaatttaaccggcatctcagagagcacccatcagatacacagcaatggctacaattcatacaataccaggatgagttgggtgcgtcagtgtttggtggcaacgaagggctacaaggcagcgaatcgtctgagtgcaaatcgaagtcatcctataaagcagtccttgagaaaaagctgagtattgcagagcgagcagtggccatcaacccgacctgcatcagtctgcagctggagaggctcaggatctgtcaggagctctgggagccctctgttctggctaaagagtggaagaaactggtgtttcttcatccaaacagtgctcctttgtggaggcggtatctgctcttcatccagagttacttcagcaacttcacagtgtctaaagtgaactcagcatatggaaaatgtctaagcacgctcagtgctgtgctagatggcagcatggtctctcactcagcccttccaggaactgaagaggacatgttggacctcttcattcagcagtgtcagttcttgcgacaggctggccactcagagaaagccatttctctgtttcaggccatgatggactttaccttcttcaagcctgacagtgtcaaaaaattgtccaccaggcagcaggttgagttctttgagcctttctgggatagtggggaagccagagttggagaggtggaggccagaggctggaaagcatggatgctccaacaagagcgagggggatggcttcccccccctacagaggaagaagataaggaggaagaagatgaagaggaggtgaaaaacaggagccaggctaaatggaaggtgtggctggatgtggagtcgttgcgtgaagcagctcactggttgccgtggagacctgacaaagccaagggtcagacggaggaggactgtgacgatcctgacagacaggtgttatttgatgacatcggctcatctctgatttgtctgtcttcaccagaactccggctccgcctcctcttatatttcttgtctttcctgggtctgcctgtagcctctattctctctgaagtctctcagcctagtttatttctggaaaatctctctgtgcttactcagggtaaggagccacagcgacctctgacctcctacgacatacctgaccttggggttgactctgtaggtcatatgacaactctccagggaaaaaggaagtgggtggggcttggaaggcagggtgagaggtttctcaccaacatgttaagcatgctgcagcctgtccttcctcctcaccacagagcttccctgactctcagcctattacaatacgaaaagctcaaagtcttgcgcagtctgcacagtggaaataaaaagcgccttcactctcaggggaagagcagcaagcgagtcgtgaaacggctcctcaaagaacctgacaaccgctcgtctctgatattgtggcgcgagtatgcccaccttgagtggctcttgggaaacctggtcgaggctcgcaaagtgttctccacagcctcagcgatggggggagtcaaagacctgagtggagcggctctgtgtgagctgtgtctcctctggtcccagcttgagctggaggaggcagcaaaggaacagagtcggcttacagatgtaaccacgtcaccagctgtctgcgtcttgaccaaactcgcagagggaacatctgcatcctttcccttctcccagtccctctctccagtttccatcctaaaggccaggaagtcctacgaacaggcgctggctgccagcttgtcagacctggaacaaagcatcaagaactctcagcctgacacaaaagaccaagaaaagcttccagaagaaaagctgaggttgagaggtctggttggctgctatgctctgttccagtacctcactgtaggcgtccatgcagccgtttcagtctacagccttgccagggagaatatggagcaactttatcacaccttagcacctgaaaagccgctcagcagcaacgagaaagccaacctgacacgcgctgaagccggcaactgtgaagccggttcccgccctcaaaaccacagttatgtcagccagttggctcatgagtgtgaggtattagcggtgcagcaggcggcattgctgaagtaccacagcagcaacagcgtgtttcctctggcaacactgagacagacactcacctcggccatctcatcctggcctagctgcgcccttttgtggggcatatatgtgcaggtggagaatcgttaccatagtgctggcagggcacgccgtttttttcactcggtaaccagagacagtggcggtgttgtaccacgcctatttgctattgtcgctgaacaacaaaggaagcagctggtggattctgctcagaggtcttgtcactacaatgaggctttgcccatactaccagaaaatggcttaggcaaccgaatccggggactttttgaaactgccaccaaaacggaggacggagctcactgccctttactgtggaggatgtacattcacttcttggtttctgatggtaaggtggataaagcccgagcgattttctataaggccctgcagaatgttccctgggtaaaggtgagggtttgtatatggatgcggtccagctgttcccggagcatctgcaggagttcatagacctgatgatggagaaagagctccgactgaggctgcctttggaagagctggatattctcctggaggactaattggacacagagatctcgttacagaaatgagctggcaacatctggaaaagcaaagatatatgttggcttaaacataaattacacatacaaagctttagtgtgaaactgtgatctacatatttgtacaaaatgctttaatgaccccttgttttaatattccagtttgacattaaatggtattgttaatca
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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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