2024-03-29 08:04:37, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_024272342 3850 bp mRNA linear VRT 28-SEP-2020 DEFINITION PREDICTED: Oryzias melastigma NRDE-2, necessary for RNA interference, domain containing (nrde2), transcript variant X1, mRNA. ACCESSION XM_024272342 VERSION XM_024272342.1 DBLINK BioProject: PRJNA436980 KEYWORDS RefSeq. SOURCE Oryzias melastigma (Indian medaka) ORGANISM Oryzias melastigma 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_050533.1) 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 melastigma Annotation Release 101 Annotation Version :: 101 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 8.5 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..3850 /organism="Oryzias melastigma" /mol_type="mRNA" /strain="HK-1" /db_xref="taxon:30732" /sex="pooled male and female" /tissue_type="muscle" /dev_stage="adult" /linkage_group="LG22" gene 1..3850 /gene="nrde2" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 9 ESTs, 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 56 samples with support for all annotated introns" /db_xref="GeneID:112146489" CDS 35..3634 /gene="nrde2" /codon_start=1 /product="nuclear exosome regulator NRDE2 isoform X1" /protein_id="XP_024128110.1" /db_xref="GeneID:112146489" /translation="
MALFPAFSEVSENKCENSTEELDWLKNKSFQTGDALSIQARFLEKNSEGLNEREASIGRDVSSTDEKAREHGVVPPKKKKKKNEKKRKKKKKYRKRSGGDSSSSGTDSDTIYPSDLKKKEEADRQHPAPLTSRFSWLDDLQSSTKQLFCVDSKPDPANWTYKSLYRGDVARYRRKGTSSLGLDCRKQEINWEDSKKKSKQKGDRGADRYFSTASRHLLRSEPSVSVTPATPDSGEGNNSTPFLPLDDPERNVRGQETSGKVQTTSVNPLGIYDSSTSLWLQGKGKPEEQELVNQTEDNAAHATGKTEEYNRRLREQPSDTQLWIQFIRYQDELSASVFGGSEELPGSESSERRKSSYRAVLEKKLSIADRAVATNPTCIALQLERLRICQELWEPSVLAKEWKKLVFLHPNSSPLWRQYLLFIQSYFSSFTVSKVNSAYGKCLSTLSAVLDGSMVSHPALPGTEEDMLDIFTQQCHFLRQAGHSEKAISLFQAMMDFTFFKPDSVQKLSTKQQVEFFEPFWDSGEARVGEVGARGWKAWMLQQERGGWLPPPAEEEDEEEEEDEEEVKDRSQARWTVWLDVESSREAAHWLPWRPDKTKGQTEEDCEDPDRQVLFDDIGSSLICLSSPKLRLRLLLHFLSFLGLPVGSILSGVSQPSLFLENLSLVTQGNEPQRPLTSCDIPDPGVNSVGHMTTLQGMRKWMGLGKQGERFLTNILSMLHPVLPPHHRASVTLTLVQYEKLKVLRSLHSGNKKRLRSQGKSSKRVVKRLLKEPDNRSSLVLWREYAHLEWLLGNLDEARKVFSTASAMGGVKGLSSVALCELCLLWSQLEVEEGAKEQRQLTDVTTSPAVCVLTKLAEGTSASFSSSQSLSPVSILKARKAYEQALAASLSGLEQSIKNSQGDTKDQEKLPEDKLRLRGLVGCYALFQYLTVSVHAAILVYSLAREKMEQLYHTLTPEKPPGGGEKANLTRSCESSSHLPNHSFVSQLAYECEVLAVQQAALLKYHSSNSVFPLATLRHTLTSALSSWPGCALLWGIYVQVENRYHSAGRARRFFHSVSRDSGGVVPRLFAIVAEQQRKQLVDSAQRSCHYNEALPVLPENGLGNRIQALFETATTTEGGAHCPLLWRMYIHFLVSDGKMDKARAIFYKALQNIPWVKGLYMDAVQLFPEHLQEFIDLMMEKELRLRLPLEELDILLED"
misc_feature 476..775 /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(476..499,506..511,521..526,530..532,536..580, 587..595,599..607,626..628,635..640,650..655,659..664, 671..691,716..727,746..775) /gene="nrde2" /note="MTR4 binding site [polypeptide binding]; other site" /db_xref="CDD:412062" misc_feature 956..1921 /gene="nrde2" /note="necessary for RNA interference; Region: NRDE-2; pfam08424" /db_xref="CDD:429988" ORIGIN
gtttactgcgtgacgtagtgatccttgcgacataatggctctctttccagctttttctgaagtatctgagaataaatgtgaaaattcgactgaagaattagactggctcaagaataagagttttcagactggcgatgcactctccattcaggctcgttttttagagaagaacagtgaggggctaaatgagagggaagcaagcattggaagggatgttagttccactgatgaaaaagcaagagaacacggagttgtgcccccaaaaaagaagaaaaagaaaaatgaaaagaaaagaaaaaagaagaaaaaatacagaaagaggagtggaggggattccagcagcagtggaactgactctgacactatataccccagtgacctaaagaagaaagaggaggctgataggcaacaccctgctccattaacaagtcgcttctcctggttggatgacctccagtcatctacaaagcagctgttctgtgtggacagtaaacctgacccagccaactggacttacaagtccctgtacagaggagatgtagccaggtataggaggaaaggcacttcctctttgggtctggactgccgcaagcaggagataaactgggaggactcaaagaaaaaaagcaagcagaaaggagatagaggagcagacagatatttttctacagcgagtcggcatctgctcaggtctgagccgtctgtttctgtaacgcctgcaactcctgacagcggtgaaggaaacaactcgactcccttcctccccctggatgatcctgagagaaatgtcagaggacaagagacaagtggcaaagtgcagacaacttctgtaaaccccttggggatatacgactcgtccacatctctgtggttgcaaggtaaaggaaagccggaggagcaggagctggtcaatcagacggaggacaacgctgcacatgcaaccgggaagactgaggaatataaccggcgtctcagagagcagccatcagatacacagctatggatacagttcatacgctaccaggatgagttgagtgcgtcagtgtttgggggcagcgaggagctaccaggcagcgaatcttctgagcgccgtaagtcctcgtatagagcagtcctggagaaaaagctgagcattgcggatcgagccgtagccaccaacccgacctgcatcgctctgcagctggagaggctcaggatctgtcaggagctctgggagccctccgttctggccaaagagtggaagaaactggtgtttcttcatccaaacagttctcctttgtggaggcagtatctactcttcatccagagctacttcagcagcttcacagtgtccaaagtgaactccgcatatgggaaatgtctgagcacgctcagtgctgtgctagatggcagcatggtctctcacccagcccttccaggaactgaagaggacatgttggacatcttcactcagcagtgtcacttcctgcgacaggccggtcactcagagaaagccatttctctgtttcaggccatgatggactttaccttcttcaagcctgacagtgtccaaaaattgtccaccaagcagcaggttgagttctttgagccgttctgggatagtggggaggccagagttggggaagtgggggccagaggctggaaagcatggatgctccaacaagagcgaggaggatggcttccacctcctgcagaggaagaggatgaggaggaagaagaggatgaagaggaggtgaaagacaggagccaggctagatggacagtgtggctggatgtggagtcttcacgtgaagcagctcactggttgccatggagaccggacaaaaccaagggtcagacggaggaggactgtgaggaccctgacagacaggtgttatttgatgacatcggctcgtccctgatttgtctgtcctcaccaaaactccggctccgcctccttctccatttcttgtctttcctgggtttgcctgtaggctctattctctctggagtctctcagcctagcttatttctggagaatctatctctggttactcagggtaacgagccccagcggcctctgacctcctgcgacatacctgaccctggggttaactctgtgggccatatgacgactctccagggaatgaggaagtggatggggcttggaaagcagggcgagaggtttctcaccaacatattgagcatgctgcaccctgtccttcctcctcaccaccgagcttctgtgactctcaccctcgtccaatacgagaagctcaaagtcttgcgcagtttgcacagtggaaataaaaagcgccttcgctctcaggggaagagcagcaagcgagtggtgaagcggctccttaaagagcctgacaaccgctcatctttggttctgtggcgcgagtatgcccacctggagtggctcctgggaaacctggatgaggctcgcaaagtgttctctacagcctcagcgatggggggagtcaaaggactgagcagcgtggctctgtgtgagctgtgtctgctctggtcccagctcgaggtggaggagggagcgaaggaacaaaggcagctcacagatgtaaccacgtcaccagctgtctgcgtcctgaccaaactcgcagagggaacatctgcatccttctcctcctcccagtctctctctccagtttccatcctaaaggccaggaaagcctacgaacaggcactggctgccagcttgtcaggcctggaacaaagcatcaagaactctcagggtgacacaaaagaccaggaaaagctgccagaagataagctgaggttgagaggtctggttggctgctacgctctgttccagtacctcaccgtgagcgtccacgctgccattttagtctacagcctggccagggagaagatggagcaactttatcacaccttaacacctgaaaagccgcccggcggtggcgagaaagccaacctgacgcgcagctgtgaatccagttcccaccttccaaaccacagttttgtcagccagttagcttatgagtgtgaggtattagcggtgcagcaggcggcattgctgaagtaccacagcagcaacagtgtgtttcctctggcaacactgaggcacacgctcacctcggccctctcatcctggcccggctgtgcccttttgtggggcatatatgtgcaggtggagaatcgttaccatagtgctggcagggcacgtcgtttttttcactctgtaagcagagacagcggcggggttgtaccacgcctctttgccattgttgctgaacaacaaaggaagcagctggtggattctgctcagaggtcttgtcactacaatgaggccttgcccgtactaccagaaaacggcctaggcaaccgaatccaggcactttttgaaactgccaccacaacggaggggggagctcactgccctttactgtggaggatgtacattcacttcttggtttctgatggtaagatggataaagccagagcgattttctataaggccctgcagaatattccctgggtaaagggtctgtatatggatgcagtccagctgtttccggagcatctgcaggagttcatagatctgatgatggagaaagagctccgactgaggctgcctttggaagagctggacattctcctggaagactaattggacagctcattaaagaaaatgagctggcaacatctgcaaaagcaatgatatttgttggctataattttcttaaaaaaattacacatacaaagctttagtgggtagctgggagctacatacttttacaaaacgtgtacaaaatgtttcaaatgctttaatatccacttgttttaatattctagtttgacaataaattgcattgttgccagttgt
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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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