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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
//

by @meso_cacase at DBCLS
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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. [Full Text]