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2024-03-29 22:27:12, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_005047441            4084 bp    mRNA    linear   VRT 20-APR-2016
DEFINITION  PREDICTED: Ficedula albicollis NRDE-2, necessary for RNA
            interference, domain containing (NRDE2), mRNA.
ACCESSION   XM_005047441
VERSION     XM_005047441.1
DBLINK      BioProject: PRJNA208061
KEYWORDS    RefSeq.
SOURCE      Ficedula albicollis (Collared flycatcher)
  ORGANISM  Ficedula albicollis
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda;
            Coelurosauria; Aves; Neognathae; Passeriformes; Muscicapidae;
            Ficedula.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_021677.1) 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 Version          :: Ficedula albicollis Annotation
                                           Release 101
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 7.0
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..4084
                     /organism="Ficedula albicollis"
                     /mol_type="mRNA"
                     /isolate="OC2"
                     /db_xref="taxon:59894"
                     /chromosome="5"
                     /sex="male"
                     /country="Sweden: Oland"
                     /collection_date="2009"
     gene            1..4084
                     /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 8 samples with support for all annotated
                     introns"
                     /db_xref="GeneID:101808268"
     CDS             34..3537
                     /gene="NRDE2"
                     /codon_start=1
                     /product="protein NRDE2 homolog"
                     /protein_id="XP_005047498.1"
                     /db_xref="GeneID:101808268"
                     /translation="
MALFPAFAGAAQPGEPPAGSAEGSTRDLDWLSNPSFSAEDALLLHQRTTEVANLIPEKSPLIRTSSRSELSEESDTDGSLKQTSKKRKKKKKKHHHSKKTKRKTKGDSSSSESEVDTKHIKDKGGGKSSGKEAAANLGKKASSVTSSRSIWLDDIQAPTADTFRIDKKPDPANWAYKSLYRGDIARYKRKGESCLGIDAKKHCITWDSSASKRKQAQSRPERYFTKNNVKMLNTDGILVRNKNSPSDPPAFIPVSQVETDDSSDTTEVNPLGIYDKSTTVWLQGKGCKGADNESVNTQQTIQEPGINTNSILMTKVEEYNKKVRENPRDINAWMEFISFQDELMRGPGPYASKGEQESRRKSLKLILEKKLAILERAIESNPSNVDLKLARLKLCAEFWEPPALIKEWQKLIFLHPNNPEMWKKYLLFCQSQFTTFSVSKINSLYGKCLTTLAAVQDGSMVSHPLLPGTEEAMLAIFIQQCHFLRQAGHSEKAVSLFQALIDFTFFKPDSVKDLPTRGQVEFFEPFWDSGEPRIGEKGARGWKAWMHQQEKGGWVIKPDDEDDEEIDEDQEIKDKTLPKWRIWLDIEYSREARHWLPWRPDKTKKETEEDCEDPERQVLFDDLGPSLIRLSDPKLQHQLLYSFLQFLGVPCTSKLFPSSLYIAMDENNIFDSVLYDDKPLTSVDFPLSGFNSIGHMDTMSRSRHQIGHHKEGEEFIQNVFHVLSQILTGKEKSNLAICWLQYEILKVIQCLQAKKKKKLKAQGRKSKKVAKNFLKAADNRNNLSLWKLYAYLEWLLGNTDDSRKVFDTALSTTGTGGLRSAQLCSLSLLYAQLEVELLDTIEGAVTSRAVHILTKLTENGPYVPYSGQVLPVNVLKARKTYEHALQDYLSRTPVSDQDQVNDTDQLVNLVGCYALFQYLTVGIDAAVLIYTQASEKLELSGSQKCENSGENSGILNFPTALEAVTLLHTNLLRFHMKISVYPLNPLREALTEALKRYPSNQSLWRSYIHIQRKSHSASKARRFFDSVTRSTNSLEPWLFAIQAEQMRKKLTEKVQRADVGEIHCTIPETGLTNRIVALFEHAVQSENGTHCPLLWRMYLNFMASLGKKEKSKGLFYKALQNCPWAKVLYMDAAEYFPDDLQETLDLMTEKELRVRVPMEELDLLLEI"
     misc_feature    517..795
                     /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(517..543,550..555,565..570,574..576,580..624,
                     631..639,643..651,673..681,691..696,700..705,712..732,
                     754..765,772..795)
                     /gene="NRDE2"
                     /note="MTR4 binding site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:412062"
     misc_feature    985..1977
                     /gene="NRDE2"
                     /note="necessary for RNA interference; Region: NRDE-2;
                     pfam08424"
                     /db_xref="CDD:429988"
ORIGIN      
gcggcagctcgggcggggggcggcggccgagacatggcgctgttcccggccttcgccggggccgcgcagcccggggagccccccgccggcagcgccgagggctccacgagagatttagactggctcagtaacccaagcttctctgcagaagatgcactattactgcaccaacgcactacagaagttgccaatctcattcctgaaaaatcaccattaataaggacttcttcaagatccgagttgtcagaagagagtgatacagatgggagtctgaaacagacaagtaagaaaagaaaaaagaaaaagaaaaagcatcaccacagtaaaaagacaaaaaggaaaaccaaaggggattccagtagcagtgaatcagaggtggacactaagcacatcaaggacaaaggaggtggcaaaagtagtggaaaggaagcagcagcaaatctaggtaagaaagcatcaagtgttaccagcagtcgctctatttggctggatgatatccaggcccccactgcagacaccttccggatagacaagaaaccagaccctgcaaactgggcctacaaatccttgtatcgtggggacattgcaaggtataaaaggaaaggagagtcctgtcttggcatagatgcaaagaaacactgtataacttgggacagttctgcatcaaaaaggaagcaagcccagagtcgacctgagcgctactttacaaagaacaatgtgaagatgctgaacacagatgggattcttgttcgtaataaaaattctccatctgatccacctgcttttataccagtttcccaagtggaaactgatgattcttctgacacaacagaagtaaatcctcttgggatttatgataaatcaaccacagtgtggctacaaggaaaagggtgcaagggtgcagacaatgagtctgtaaatacacagcagacaattcaagagcctgggataaacacaaactccattttaatgacaaaagtggaagaatataacaagaaagtcagagaaaacccaagagatattaatgcttggatggaatttatttcctttcaggatgaattaatgagaggacctggcccttatgccagtaagggagagcaggaatcaaggagaaaatcactcaagttaatcttggaaaagaaactggccattttagagagggcaattgaaagcaatccaagtaatgttgatcttaaacttgccaggctgaagctttgcgcagagttctgggaaccaccagctttgatcaaagaatggcagaagctaatttttttacatcccaataatccagagatgtggaagaaataccttctgttctgtcaaagtcagttcactactttttcagtttcaaagatcaacagtctttatggaaaatgtttgacaacactggcagctgtacaggatggcagcatggtatcccatcctctgctgcctggcacagaagaagctatgctggctatatttattcagcaatgccacttcctgagacaggctggccattctgagaaagcagtgtctttgtttcaggctctgattgacttcaccttctttaaacctgacagtgtaaaagatctgccaacaaggggacaggtggaattctttgaacctttttgggatagtggagaaccacgaattggagaaaaaggagcaagaggctggaaagcatggatgcaccaacaagaaaagggtggctgggttataaagcctgatgatgaggatgatgaagagatcgatgaggatcaagaaataaaagataaaactctccccaagtggcgtatttggttggatattgaatattcccgtgaggcaaggcactggttaccttggaggccagacaaaaccaaaaaggaaactgaagaagattgtgaagatccagaaagacaggtgttatttgatgatcttgggccatctttaatccgtctttctgatccaaagcttcaacatcaactattgtactcttttttgcaattcctgggagttccatgtacaagtaaactcttcccttccagtctctatattgccatggatgaaaataacatctttgacagtgtgctttatgatgataaaccgctgacttctgttgattttccactttctggattcaacagtattggtcacatggatacgatgtcacgaagcagacatcagataggccaccataaagaaggagaggagttcatacagaatgtcttccatgttctgtcccagatattgacaggaaaggaaaaatctaacctggccatttgttggctacagtatgaaatattgaaggtaattcagtgtctccaagcaaaaaagaaaaagaaactaaaagcacaagggaggaagagtaagaaggtggccaagaatttccttaaagcagctgacaaccgaaacaacctttctctctggaaactctatgcctacctagaatggctgcttggtaacacagatgattccaggaaggtgtttgacacagctcttagcacaacagggacgggaggattgaggagtgcccagctctgcagcctcagcctgctttatgctcagctggaagtggaactgctggacactatagaaggagctgttacgtcacgtgctgttcatatattgaccaaactgactgaaaatggaccatatgtgccctatagtggacaagtgttacctgtgaatgtcttgaaagctcgtaaaacatatgagcatgcactgcaagattatttaagcagaacaccagtttctgatcaggatcaggtcaatgatactgatcagctggttaacctggttggttgttatgcactgttccagtatttgactgttgggattgatgctgcagtattgatatatacacaggcttcagaaaaacttgaactttctggttcacagaaatgtgaaaattctggagagaattctggcattctaaattttcccacagctcttgaagctgtcacactgctgcatacaaatttactgagattccacatgaaaattagtgtttatcctttgaatcccctgcgagaggcactgacggaggctctgaaacggtatcctagcaaccagtctctttggaggtcatacattcacatccaaaggaagtctcacagtgcaagcaaagcacgaagattttttgatagtgtcacaaggtctactaactctttagagccatggctgtttgcaatccaagcagagcagatgagaaaaaaactcacagagaaggtccagagggcagatgttggtgaaatacattgtactattcctgaaactggattaacaaatcggattgtagctctttttgaacatgcagttcagagtgaaaatggtactcattgtcccctgctatggagaatgtatttgaactttatggcttcactgggaaaaaaagaaaaaagtaaaggattgttttataaagcccttcaaaactgcccttgggcaaaggtactctatatggatgcagcagagtatttccccgatgatctgcaagagacactcgatctaatgactgaaaaagaactgagagtgcgggtacctatggaagagctggatctactactagagatttaaaaaagactgtagcagggtggatgaagtacagaagctgcttccaaagttaacagttagatccatctcttttcatacaggaactctgttgggacttgggtactatgtacttgatatttttttgttgttaatttttttataaaaattcctatcaaaatggagttctactacctgcaagtattctggaatcaaggactgcattttgctcacaataatggatccatttctctgaaatattgctggctccctcagaaggataccctctttaaatagccttattctattgtttgaaattacattccccaggattcagtacatgccaactatggcttggtgagcagcacaggaaataaacatctgccaaatggatgctccactgtcctccacttggcagacttcagtaatttccttcagtgtggtatgcctgtatatatgtaactgccaagtcaaacagccattacatctgtacatatactgtgagtaaaagctaaatttttgtttgagcaggcaactattttggtatgctttgacagatgaccattttaataca
//

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]