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2024-03-29 18:49:09, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_234465               5878 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus NRDE-2, necessary for RNA
            interference, domain containing (Nrde2), transcript variant X1,
            mRNA.
ACCESSION   XM_234465
VERSION     XM_234465.10
DBLINK      BioProject: PRJNA677964
KEYWORDS    RefSeq.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_051341.1) annotated using gene prediction method: Gnomon,
            supported by EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On Jan 21, 2021 this sequence version replaced XM_234465.9.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Updated annotation
            Annotation Name             :: GCF_015227675.2-RS_2023_06
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 10.1
            Annotation Method           :: Best-placed RefSeq; Gnomon;
                                           cmsearch; tRNAscan-SE
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            Annotation Date             :: 06/06/2023
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..5878
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="6"
                     /sex="male"
                     /tissue_type="kidney"
                     /country="USA: Wisconsin, Milwaukee, Medical College of
                     Wisconsin"
                     /collection_date="2019-03-08"
                     /collected_by="Rebecca Schilling"
     gene            1..5878
                     /gene="Nrde2"
                     /note="NRDE-2, necessary for RNA interference, domain
                     containing; Derived by automated computational analysis
                     using gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 10 ESTs, 1 long SRA read, 2
                     Proteins, and 100% coverage of the annotated genomic
                     feature by RNAseq alignments, including 194 samples with
                     support for all annotated introns"
                     /db_xref="GeneID:314381"
                     /db_xref="RGD:1565082"
     CDS             210..3707
                     /gene="Nrde2"
                     /codon_start=1
                     /product="nuclear exosome regulator NRDE2"
                     /protein_id="XP_234465.5"
                     /db_xref="GeneID:314381"
                     /db_xref="RGD:1565082"
                     /translation="
MALFPAFAGVSEASGDGASRKELDWLSNPSFRVGNLTSLSRQTEEVPALASEASPLTRSPLKSELSDESDTNEKLTQISKKKKKEKKKKRKHQHHKKTKRRHEQSSSSGSGSDTEAGKDRASRSIRDSQESEKARQGSNAVPAAPATGHSSIWLEDIYTLTDVFRTDKKPDPANWEYKSLYRGDIARYKRKGDSCLGINPKKQCISWEGASAAKKHSHRHLERYFTKKNVALLRTEGIAVCSNPEPSSSEPAPFIPVKDSADVATPVTTWLNPLGIYDQSTTQWLQGQGPAEPELKQPDSQQERDSAALKARVEEFNRRVRENPRDTQLWMAFVAFQDEVMRSPGIYALGEGEQEKHRKSLKLLLEKKLAVLERAIESNPSSVELKLAKLQLCSEFWEPSALTKEWQKLLFLHPNNTSLWQRYLSFCQSQFGTFSVSKLHSLYGKCLSTLSAVKDGSMLSHPVLPGTEEAMFGLFLQQCHFLRQAGHSEKVVSLFQAMVDFTFFKPDSVKELPTKVQVEFFEPFWDSGEPRVGEKGARGWRAWMHQQERGGWVLVNPDEDDEEPEEEDQEIKDKTLPRWQIWLAMERSRDQRHWRPWRPDKTKKQTEEDCEDPERQVLFDDVGQSLIRLSSPDLQFQLIEAFLQFLGVPSGFLPPASCLYLAMDESSIFESKLYDEKPLTYFNPLFSGISCVGYMEQLDCPRWTKGHNREGEEFVRNVFHLVLPLFSGKQKCQLCLSWLRYEIAKVIWCLHTKKKRLKSQGKNCKKLAKSLLKEPENRNNLCLWRQYAHLEWLLGNTEDARKVLDAALSMAGSSDLKDRELCELSLLYAELEVELSPDSRGATTGRAVHVLTRLTESSPCGPYTGQVSSTQVLKARKAYEHALQDCLGQSCASSPPTAESLDCLGSLVKCFMLFQYLTVGIDAAVQVYRQVFSKLEGSALLEGPGPEDSASSQSVTSVLEAVTLMHTSLLRFHMNICVYPLAPLRETLSDALKLYPGNQGLWRAYVQIQNKSHSANKTRRFFDTVTRSAKHLEPWLFAIEAEKLRKRLVESVQRVGGREVHATIPETGLTHRIRALFENAIRSDQGGQCPLLWRMYLKFLVSLGNKERSKGVFYKALQSCPWAKVLYMDAVEYFPEELQEILDVMTEKELRVRLPLEELELLLED"
     misc_feature    699..986
                     /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(699..722,729..734,744..749,753..755,759..803,
                     810..818,822..830,852..860,870..875,879..884,891..911,
                     936..947,957..986)
                     /gene="Nrde2"
                     /note="MTR4 binding site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:412062"
     misc_feature    1152..2150
                     /gene="Nrde2"
                     /note="necessary for RNA interference; Region: NRDE-2;
                     pfam08424"
                     /db_xref="CDD:429988"
ORIGIN      
gcacaaggaaacagctctttcccggcctcacttttttcccctcctcccctctctaccctttgggtctcggcaccacctaacccagggttaagccccatcgggtgctcagaactacatttcccagagggcttcgcgagtcagcgtcctccaatcagagctctccagacggcgccatttctgtggcggaagtggtggtgcggcctgtgatcatggcgctgttcccggccttcgcgggcgtaagtgaggcctccggtgatggagcatccaggaaagagttagactggctgagcaacccaagctttcgtgttggaaatctcacgtctctgagccgacaaactgaagaggtcccggcccttgcttctgaagcgtcaccactgacaaggagtccgttgaagtcagagctctcagatgagagtgacactaatgagaagctcacacagataagcaagaaaaagaagaaagagaaaaagaagaaaaggaaacaccagcaccacaagaaaaccaagaggagacacgagcagtcgagcagcagtgggtccgggtcagacacagaggctgggaaggacagggcttcccgaagtatcagggatagccaagagtctgagaaagcccgtcaaggaagtaatgctgttcctgctgctcctgctactggacatagctccatttggctggaagatatttacactctgacagacgtcttcaggacagataagaaaccagatcctgccaactgggagtataaatctctgtatcgtggggatatagcaaggtacaagaggaagggagactcctgcctgggtatcaaccctaagaagcagtgtatatcttgggaaggggcttctgcagcaaagaagcactcacacagacacctggagcgctattttaccaagaagaatgtggcattgttacgaactgaggggattgccgtgtgcagtaaccctgagccctcctcctctgagccagccccattcatcccagtgaaggactctgccgatgtggctactcctgttacaacatggctgaatcctctgggcatttatgatcagtctaccacacagtggttacaagggcagggtccagcagagccagagttaaagcagccagactcacagcaggagagggacagtgctgctcttaaggccagagtggaagagtttaacaggagagttcgggaaaaccctcgggacacgcagctatggatggcattcgtggctttccaggatgaagtcatgaggagtcctggcatctatgctcttggggaaggagagcaggagaagcacaggaagtccctgaagctcctcctggagaagaagctggctgtactggagcgggccatcgagagcaacccaagcagcgtggagctgaagctcgccaagttgcagctgtgctcagaattctgggagcctagtgcgctgaccaaggagtggcagaagctcctcttcctgcaccccaacaacacaagcctgtggcagcgctatctctccttttgccagagtcagtttggcaccttttctgtgtccaaactccacagtctatatggcaagtgcttgagtaccttgtctgctgttaaagacggcagcatgttatcccaccctgtgttgccgggcactgaggaggccatgtttgggctctttcttcagcagtgccactttctacggcaggctggccactcggagaaggtcgtctctctgttccaggccatggttgacttcaccttcttcaagcctgacagtgtgaaagagctgcccacaaaagtgcaggtggaattctttgaacccttctgggacagcggagagccccgtgttggggagaagggagcccgaggctggcgggcgtggatgcaccagcaggagcgtggtggctgggtgcttgtcaacccagatgaggatgacgaggagccggaagaagaggaccaagagataaaagacaagaccctgcccaggtggcagatctggcttgctatggaacgttctcgagaccagaggcactggcgtccctggcgccctgataagaccaagaagcaaacggaggaagactgtgaggaccccgagagacaggtgctgtttgatgacgttgggcaatctttgatcagactttccagcccagatcttcagttccagctcattgaggcctttctgcagttcctgggtgtaccttctggcttccttcccccagcctcctgcctttatctggccatggacgagagtagcatctttgagagtaaactttatgatgaaaagcccttgacttacttcaaccctttattttctggcattagctgtgtgggctacatggaacagttggattgtcctcgctggaccaaaggtcacaaccgagagggcgaggagtttgtccgcaatgtcttccacctggtgctgcctctgttctcaggcaagcagaagtgccagctctgcctctcttggttacggtacgagattgccaaggtcatttggtgtctacacactaaaaagaagagattgaagtctcagggaaagaactgcaaaaagctagccaagagtctcctcaaggagccagaaaaccgcaacaacctctgcctctggaggcagtatgcacacctggagtggttgctcggcaacacagaggatgccagaaaggtgttggatgcagccctcagcatggcaggcagcagcgacctgaaggaccgggagctctgtgagctcagtctgctctatgctgagctggaggtagagctgtctcctgactcgagaggagccaccacaggccgtgccgtccacgtactaactcggctgacggagagcagcccctgtgggccctacactgggcaggtctcgtccactcaggttctgaaagcccggaaggcttatgagcatgcgctgcaggactgtctgggacagagctgtgcctccagcccacctactgcagagtcgttggactgcctgggtagcctggtcaaatgcttcatgctcttccagtatttgactgtaggaattgacgctgctgtgcaggtgtacagacaggtgttttccaagctggagggctctgctctcctggaaggcccggggccagaggacagtgccagctcccagagtgtgaccagtgttctcgaggccgtcaccctgatgcacacaagcctgctgcgattccacatgaacatttgtgtgtaccctctggctccactccgagagaccctctcagacgctttaaagctgtatccaggcaaccagggtctttggagggcttacgtgcagattcagaataagtcccacagtgctaacaagaccagaagattctttgacacagtcactaggtctgccaagcatttggagccttggctgtttgcaatcgaagctgagaagctgaggaaaaggctggtggaatctgttcagagggtaggtggcagggaggtccatgctacaatccccgagactggtcttacgcatcggatcagagctttgtttgaaaatgcaatccggagcgaccagggtggccagtgcccgctgctgtggaggatgtatttgaaatttttggtttccttaggaaacaaagaaaggagcaaaggtgtgttctacaaggccctccagagctgtccttgggcaaaggtgctgtacatggacgccgtggagtatttcccagaggagctgcaggagatcctggatgtgatgactgagaaggagctccgtgtgcgcctgcccctcgaggagctggagctgctgctggaggattagactagggctgtgcagcctgcagagcccagagccgcagcctcgcgaggccttcctccatggtctggtggggtttgggtgcatcgctttacatattatatatgtgatctctgtacagacggagatgccagtgataaaccttttgtggttgacatgtatgtacctccttattccctctgtccaccacacttggcccctcacactgcttgtgtccaggatcctggtctcggcctctgaccctggagtgccactgagatctccctcctcccctgggctgatgagcagagatacatagttctctctctgccacccagaacaggagatggttgtttactatttcctgtcttgggtcataggtgtggcaagtttattattatttctctagccttgctctggtgacagctgtctttgggggtccatagggacccttgggtctgcctttcactggagcccagctgatcatgtgctcagtacggtgtgcaaatccttgggcagcaccctctgtaggaaccttgctgtcacgtgacctcagagcagagtctgttcccaacagccgacctcacctggtgtagagcacctgtcttgagaatgcagtcactttttactgaggggcagctctgtagcacagcttctgcccatggctgtttagcttggctggagggatggcttgcctgtatttacggcaggaatgcccacagggattgcagagctgctttctggatattttgaaacagggtggccttgaactcttgcttctcctgcacttgcctcctgggcattaatattctatttctgcttatgttgggatttagacaccggccttacactgtcctgtagatggctcccccttctgtgtacacgtttcttacccttggtctcggacactccaagcctagtggcatcctcagggctgaattttgaagctgtttagcttctcatggagaccatctaagcagactacccactctgcacagccacctacatggagatatccctgggtggacaggaactcctccccacgcccaggtagccacaccctagacctggaacctgtgaatatcctgtagagtccgggatgcacatgaggtccacagaggcagaaggagcattgagaagttaatgccagtcacacctatacaattaagtctggactatacatgaagcctgggctacatttgaagatcttaatggcagaaatcaagtgagaaggctgtcctggggtgtcagtctggtcaggagactcttggaaggtgaaaaaggaaagtagaaaggggtggagagggagagaaaataaaagaggacccagagcttgacctgctcttctaactttgaagatggagggtgctaggatccaggagtcagggtggcctctacaaggtgggaaaggccctcagttgccagccagtactgaccacagcccatggctataaggagctgaccactcagacctcaaggaaactatttttctctctcgagcattcagaaaggggtacagtagatatcaagacagtagctttctgagtggtctttcgacaacctatacactaagataaatttgtacctgagtcatggtggcaaaaggagaggaagaggccttccctccataggccacctacctccttgtggctgtaaggaaccatctgttaaaggaaatactaagtgttgaggtttatgaacccagaactgaggcaggcatagttgggaaaagattcttcactgactcctcagggatctccccctcttgggaacacgcacggcccaatgtggaggctctagttagcccacagtaaagcagttccttcagccacattaacttagccttttccattcaaagaccattggccttgtggctccacctgaggcactgctttggaaatacgaagtgggctccttgtggttgccaatgggcttccctaatacagggtccccccatctgctgcagtgaaagtgcacgcttatgctgactaccttcctgtcaacttgacagaagccagtctcttgggagatggaactttacagagaaagtgcctccatcagatcggcctgtcttaagtctatgggattttcttaataaatgaatgatttgtggggttggggatttagctcagtggtagagcgcttgcctaggaagcgcaaggccctgggttcggtccccagctccgaaaaaaaaaaaa
//

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]