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
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Creative Commons Attribution 4.0 International License (CC BY 4.0).
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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