2024-03-28 18:38:19, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_006208192 5582 bp mRNA linear MAM 22-NOV-2019 DEFINITION PREDICTED: Vicugna pacos NRDE-2, necessary for RNA interference, domain containing (NRDE2), mRNA. ACCESSION XM_006208192 VERSION XM_006208192.3 DBLINK BioProject: PRJNA221631 KEYWORDS RefSeq. SOURCE Vicugna pacos (alpaca) ORGANISM Vicugna pacos Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Tylopoda; Camelidae; Vicugna. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NW_021964165.1) annotated using gene prediction method: Gnomon, supported by mRNA evidence. Also see: Documentation of NCBI's Annotation Process On Nov 22, 2019 this sequence version replaced XM_006208192.2. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Name :: Vicugna pacos Annotation Release 102 Annotation Version :: 102 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 8.2 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..5582 /organism="Vicugna pacos" /mol_type="mRNA" /isolate="Carlotta (AHFN-0088)" /db_xref="taxon:30538" /chromosome="6" /map="unlocalized" /sex="female" /tissue_type="blood" /dev_stage="adult" gene 1..5582 /gene="NRDE2" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 mRNAs, 9 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 39 samples with support for all annotated introns" /db_xref="GeneID:102539179" CDS 75..3572 /gene="NRDE2" /codon_start=1 /product="nuclear exosome regulator NRDE2" /protein_id="XP_006208254.1" /db_xref="GeneID:102539179" /translation="
MALFPAFAGVSEAPDSGSSRKELDWLSNPSFCVGTITSLSRQTEEATALVPEGSPLTRSPLKSEPSDESDSSRKPRRASRKKKKEKKKKRKHQHHKKTKRRRGQSSSSGSEPYTDSEEDRPSRSVRDSKTESEKPNQENNAAADTGRHSVWLEDIQTLTGETFRTDKRPDPANWEYKSLYRGDIARYKRKGDSCLGINPKKQCVSWEGTSTEKKRSHKRVERYFTRKNVGLMNIDGVAVSGKTEPPSSEPLSFIPVKDSEDVVSPVTTWLNPLGIYDLSTTQWLQGQGPSEQESKQPDPQPGRENAILKAKVEDFNRRVRENPRDVQLWMAFVAFQDEVMRSPGLYAAEEGQQEKQKRSLRLVLEKKLAILERAIESNQSSMDLKLAKLQLCTAFWEPPTLLKEWQKLIFLHPNNTGLWQKYLLFCQSQFSTFSISKIQSLYGKCLSTLSAVKDGSILSHPELPGTEDAMFALFLQQCHFLRQAGHAEKAVSLFQAMVDFTFFKPDSVKDLPTKGQVEFFEPFWDSGEPRAGEKGARGWRAWMHQQERGGWVVVSPDDDDDEPEDDDQEIKDKTLPRWRIWLAAERSRDQRHWRPWRPDKTRKQTEEDCEDPERQVLFDDIGQSLIRLSSPDLQFQLIAAFLQFLGVPSGFSPPTSCLYLAMDENSIFDNGLYDEKPLTFLNLSFSGISCVGCTDQLGCRRWTRGHGREGEEFIRNIFHLVMPLFSGQERSQLCFSWLQYEIAKVIWCLHTKNKKRLKSQGKNCKKLAKNLLKEPDNRNSFCLWKQYAHLEWLLGNTEDARKVFDSALSIAGSRGLRDHELCELSLLYAELEVELLPDAGGAATARAVHILTRLAENGPCGPCTGQVLGVHILKARKAYEHALQDCLGESCISDPTPTESFNRLISLVKCFMLFQYLTVGIDGAVRIYEQVFAKLKGSVSPEGSGLEVSARPRSLSQVLEAVTLMHTSLLRFHMKISIYPLAPLREALSEALKLYPSNPVLWRAYIQIQTKSHSASKTRRFFDAVTRSAKPLEPWLFAIEAEKMRKRLVETVQRVDGREVHATIPETGLTHRIRALFDNALRSDSGSRCPLLWRMYLNFLVSLGNKERSKGVFYKALQNCPWAKVLYLDAVEYFPDEMQEILDLMTEKELRVRLPLEELELLLED"
misc_feature 558..848 /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(558..584,591..596,606..611,615..617,621..665, 672..680,684..692,714..722,732..737,741..746,753..773, 798..809,819..848) /gene="NRDE2" /note="MTR4 binding site [polypeptide binding]; other site" /db_xref="CDD:412062" misc_feature 1017..2012 /gene="NRDE2" /note="necessary for RNA interference; Region: NRDE-2; pfam08424" /db_xref="CDD:429988" ORIGIN
cgcaaaggccttactaccggcctccgctccgggcgccatttctgtggcgtgaaaaggcggcgcggcctgtgatcatggcgctgttccccgcgtttgcgggcgttagtgaggcgcccgatagcgggagctccaggaaagaattagactggctgagcaacccaagcttttgtgttggaaccataacatctctgagtcgacaaactgaagaggccacagcccttgttcctgaagggtcaccactgacaaggagtcctctgaaatcagagccttcagatgaaagtgacagcagcagaaagcccagacgagcaagcagaaagaagaagaaagagaaaaagaagaaaaggaagcatcagcaccacaagaaaaccaagaggagacgtgggcagtcgagtagcagtgggtctgagccatatactgattctgaagaggacagaccttcccgaagcgtcagggacagtaagacggagtcagagaaaccaaatcaagaaaacaatgctgctgctgatactggacgtcactctgtttggcttgaggacattcagactctgacaggagaaaccttcagaacagataagaggccagatcctgcaaactgggagtacaagtccctttaccgaggagatatagccagatacaagaggaaaggagactcctgccttggcattaaccctaagaagcaatgtgtatcttgggaggggacgtccacagaaaagaagcgttcacacaagcgtgtcgagcgctatttcacaaggaagaatgtgggattaatgaacattgacggagttgccgttagcggtaaaaccgaacctccgtcatccgagccactctcgtttatcccagtgaaggactcagaggatgtggtttctcctgttacaacctggctgaaccctctggggatttacgatctatccaccacgcagtggttgcaaggacagggtccttcagagcaagaatccaagcagccagacccacagccaggcagagagaatgcgattctcaaggccaaggtggaggattttaacaggagggttcgggagaatcctcgggatgttcagctgtggatggcgtttgttgcttttcaggacgaggtcatgagaagtcccggcctgtacgccgcggaggaaggacagcaggaaaagcagaagcggtccctgcggctggtcctggagaagaagctggccattctggagcgggccatcgaaagcaaccagagcagcatggacctgaagctcgccaagctgcagctctgcaccgcgttctgggagcccccgacgctgctcaaagagtggcagaaactgatcttcctgcatcccaacaatacaggcctgtggcagaaataccttctgttttgccagagccagttcagcaccttttccatatcaaaaattcagagtctgtatggaaaatgcttgagtacgttgtctgccgttaaggacggcagcatcttatctcaccccgagctgcccggcaccgaggacgccatgtttgctctctttcttcagcagtgccacttcctgcggcaggccgggcacgcggagaaggcggtctctctgttccaggccatggttgacttcaccttcttcaaacccgacagcgtgaaagatctgcctacgaaaggacaggtggaattctttgagcccttttgggacagtggagagccgcgggctggggagaagggcgctcgaggctggagagcgtggatgcaccagcaggagcggggcggctgggtggtcgtcagcccagatgacgatgatgacgaaccagaagatgatgaccaggaaattaaagataagactctgcccaggtggcggatctggcttgctgcagagcggtcccgagaccagaggcactggcggccgtggcgccccgataagaccaggaagcagaccgaggaagactgcgaggatccagagagacaggtgttgtttgatgatatcggacagtctctgatccgactttccagcccggatcttcagtttcagctgattgcggcctttctgcagttcttgggtgtgccttccggcttcagccctccaacctcctgcctctatctggccatggatgagaacagcatcttcgataatggactttatgatgaaaagcccttgacttttctcaacctttcattttccggcatcagctgtgtcggctgcacggaccagttgggatgccggcgctggaccaggggtcatggtcgagagggcgaggagttcatccgcaacatcttccaccttgtgatgcctttgttttcaggccaggagcggtctcagctctgcttctcttggttacagtatgagatcgcaaaggtcatttggtgtctgcacaccaaaaacaagaagagattaaagtcacaaggaaagaactgcaaaaaactagccaagaatctcctcaaggagccagacaaccgcaacagtttttgcctctggaagcagtacgcgcatctggagtggttgctcggcaacacagaggacgccagaaaagtatttgattcggccctcagcatagcggggagcaggggactgagggatcacgagctctgtgagctcagcctcctgtacgctgagctggaggtggagctgctgccagacgcgggaggggccgccacagcgcgggctgttcacatactgaccagactggccgagaacgggccctgcgggccctgcaccggccaggtcttgggcgttcacattttgaaagcccggaaggcttatgaacacgcgctgcaggactgtttgggtgagagctgtatctccgatccaacccctaccgagtcctttaaccgcctgattagcttggttaaatgcttcatgctcttccagtatttgaccgtagggatcgatggtgcggtgcggatatatgagcaagtatttgcaaaactgaagggctctgtttccccggagggctccggcctggaggtcagtgccaggccccggagcctgagccaggtcctcgaggccgtcaccctgatgcacacgagcctgctcagattccacatgaagatcagcatctacccgctggctcctctgcgagaggctctctcggaggctttaaagctgtatcccagcaacccggttctttggagggcgtatatacagattcagactaagtcccacagcgccagtaagaccagacggttcttcgatgctgtcaccaggtctgccaaacccttggagccatggttgtttgccattgaagctgagaaaatgaggaagaggctggtggaaactgtgcagagggtggacggcagggaggtccacgccaccatcccggagaccggcctgacgcatcggatcagagccctgtttgacaacgcgttgcggagtgacagcggcagccggtgccccttactgtggaggatgtatttgaattttttggtttccttaggaaataaagaaagaagcaaaggtgtgttctacaaagcacttcagaactgtccctgggcaaaggtgctgtacctggacgccgtggagtacttccccgatgagatgcaggagatcctggacctgatgacggagaaggagctccgggtgcgcctgccgctggaggagctggagcttctacttgaggactagagacctggaggggagtggggagcgtgtcttcgaggccttgggacctgtcctgtccgagccagaatgaaccaggagatggtgacacatgccttcgagcgtgtgtgctgagacctctgcctttgacatttgtttcttggtaatttgtgtctgggttgtcagtctctcacctcttgcactttttttgcatgtgcaagtgacacgaaagctgttgtcttacatattatatatgtgaatatgtgtatatatgtgcatagacaaggatcgtgtcaggtggtaactgagcctggcgtggccggtgtacgaattcttgttcggtccgctgttgccctgcccagccagtgccagccctgcccgggtgaatatacgttcctgataggcatccttgctgctcttgcagttgagataagaaaggtctggttaactcggtactaggacctgctccaccaggccttatcctcagaccagagcagtggggagtcacttagaacttgatgttctcacctgtatcagatgtgttcaaagttctcatttttccctaagccctgctctgtgatgcctccaaccacagacccagcagctagcatcacctgggggccttttagaaatgcagtatctcaggccacaccctggccctctgagtcagaaccggtgctctaacgggacccctttcaggggacttgtgtgtacatcacagtgtggaaagcactgccccaaataaggaccctgctgcaggggaggtcgccagcagccactatggccgagtggaggacggagccagccccttcccagcagatccagccctgcctgtgcgacgtgccgaaggtacgcgttcagcgtgcgtgtcagctcagcttaagatgtggaggcccaggccggctatgtactcattctgattctgaggctgtaacatttgactgagcgaaactaacttccctgaggtcctgctttaaaaaaaatggacagtttttctcggctttttaaaaaaaaaaatcatgctgcctagaaccgctgaaagcacgtttctttggcaccttatcccagaagagccagtgttgtggaacaaagttgtggctagaaactgatggatgtgggttgggtaaagaaggggaggacagcacagctgagcattttctagagagcaactcagggcccccagggaagctgcccgccagccgaggcgaggcttaccttggtctgccccacttcctggctgtaagactgaactggccagaaaggagagagaagagctggaaacagagaaagtcaagaggaagctctgacacatctttgagctctcgggagggatgaggtttctcaactcgggaacaagggatgttggggttgccatgagattctgcaaccctgacctgagactccttttagaaacccccggtctcctagcgacaccagtacctctttcctgtccccagcatgccgagaactcatactccataaacttccaaaagtgaatgctttctttccttctgaagcccctgctgtgtgaactcggcctttgctgcttaaacaactaggatcgctggctattcggttgtgatcctttctttcccatcggctgctgttgaacagcaaccaccagactgggggtgtgatgtggggacaaacaggtgctgaagcttgctgtccctgtgagcaccgggaagcttccctgacgcccggatccacccacttgctgctgagccgcaggcgcagacggtccagaaacaggactcggtgttgagaaaaagcaggctttattgggacgaggacactgcacgcgaccaacagacgaaggcagcccgatgggcaccccctacgccacgctcagaaaggtacacggatgtttcactaatgacgagcaactggaacatcgactcccctgggcggcttccccagcctcatccctcccaggggtcaggacactgctgccgtttccctaaaggcagctgtggtccctagagatagagcccctcaggggtgccttcttgttttttataaagaacattttcttta
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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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