2024-04-30 00:18:17, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_006250367 6148 bp mRNA linear ROD 11-JUN-2023 DEFINITION PREDICTED: Rattus norvegicus nuclear VCP-like (Nvl), transcript variant X2, mRNA. ACCESSION XM_006250367 VERSION XM_006250367.4 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_051348.1) 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_006250367.3. ##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..6148 /organism="Rattus norvegicus" /mol_type="mRNA" /strain="BN/NHsdMcwi" /db_xref="taxon:10116" /chromosome="13" /sex="male" /tissue_type="kidney" /country="USA: Wisconsin, Milwaukee, Medical College of Wisconsin" /collection_date="2019-03-08" /collected_by="Rebecca Schilling" gene 1..6148 /gene="Nvl" /note="nuclear VCP-like; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 20 ESTs, 3 long SRA reads, 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 91 samples with support for all annotated introns" /db_xref="GeneID:289323" /db_xref="RGD:1311270" CDS 781..3270 /gene="Nvl" /codon_start=1 /product="nuclear valosin-containing protein-like isoform X2" /protein_id="XP_006250429.1" /db_xref="GeneID:289323" /db_xref="RGD:1311270" /translation="
MKPRPAVFVDRKLKQRVIQYLSSNRCGKYVDTGILASDLQRMYSVDYGRRKRNAFRIQVEKVFNIISSEKEHKNLKELEDGHLAKRARQDEDDEYTESYSDDDSNMEDYPDPQLEQREDATSSPLLSSKTDSMPLKTPAREPEGGWFIDKTPGGQKESLPLDLSDDQSNCKKQDPGIQNLKDSSLLESDKKRKSRAKGKGNKRKTEGLQEADGEIEAILQKRAKAKSTELQISSVKFEDVGGNDATLKEVCKMLIHMRHPEVYQHLGVVPPRGVLLHGPPGCGKTLLAHAIAGELDLPILKVAAPEIVSGVSGESEQKLRDLFDQAVSNAPCIVFIDEIDAITPKREVASKDMERRIVAQLLTCMDDLNNVAATARVLVVGATNRPDSLDPALRRAGRFDREVCLGIPDEASRERILQTLCRKLRLPETFNFSHLAHLTPGFVGADLMALCREAAVCAVHRVLMRRQEQQRTEPETGGLPSDGEQGRSLGAEPPSETQDELQRLLGLLRDQDPISEEQMQGLCLELNDFIVALSEVQPSAKREGFVTVPNVTWADVGALEDIREELTMAILAPVRNPEQFRALGLVAPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLETRQQVFILAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRVAILKTITKNGTKPPLDEDVDLEAIANDHRCDCYTGADLSALVREASLCALRQEITGQKNGIGTAELTVSHKHFEEAFRKVKPSISVKDQRMYEALQRSLSQ"
misc_feature 784..993 /gene="Nvl" /note="Nucleolin binding domain; Region: Nucleolin_bd; pfam16725" /db_xref="CDD:435539" misc_feature <1426..3267 /gene="Nvl" /note="AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243" /db_xref="CDD:273521" ORIGIN
actcacatttgggttttatcttctttctctgagcacctctctattaactgctgtgcttaagagtgttaaaacgatcttttaataaattccaattctgcttcatatacgtttgtcctgaaattattttctgcaacaaagtcatgaatcttgtatattcctgggaagacgttcctatggggaaaagttcttaggctgcagactgagttttacactatcctgggcttacagtgtgagactctctctcagaacagaacacacaaacaaacaaaaaccgcgaacacactgcggttcccaaactttcttgttttgagacagcatcttactggttggacctgctgcctttgaactcttcctcaatcatccctgtctcggtttcccgaatacttaaaagtataagttttttcctgcttttcctgggttggcatcaagtttgcttgcttgtgagagtctgcgcagccgcaaagaatgaagtccgtgtccgtttgctcagttgggaaccaataaagttgaatgtcttcaaagcgggcctagcaacttaggcactgctgggcagtcctgaaaaggagccagactggaaactcgcgcgcacttccaggtcttcccgaattccttagcagcgcggtcctccctactcgcggagctttcgtgttgagcagaagttgcgggaggaacttccgatgccgcgggaccacgcgtgggcggagcttccggtgcggcggagagggaggctgctgcagtcttccccggtaaagtgagacaccagcgccaggcagtgggagcatgaagcccagacccgcggttttcgtagacaggaaactgaagcaacgagtcattcagtacctcagtagtaatagatgtggcaaatatgtggacactggaatcttagcatccgacttgcaaagaatgtacagtgtagattatggtcgaagaaaaagaaatgcttttagaatccaggtggaaaaagtgtttaacataattagtagtgagaaagaacataagaatcttaaagaactagaagatggacatctggcaaaaagagcaagacaagatgaagatgatgagtacactgaaagctattctgatgatgattcaaacatggaagattacccagatccacagttggaacagagagaagacgccacttcatcaccattgctgtcttctaaaacagactccatgccattgaagacccctgcccgagaacctgagggaggatggtttattgacaaaaccccaggtggacagaaagaaagtcttcccttggacctgtcagatgaccaaagcaactgtaaaaagcaggatcctgggattcagaatttaaaagattcttctcttctggaaagtgacaagaaaaggaaaagtagggcaaaaggcaaaggaaacaaaagaaagacagagggtcttcaagaagcggatggagagatagaagctattctgcaaaagagagctaaagcgaagagtacagagttgcagatttccagtgtgaagtttgaagatgtcggaggcaatgatgcgacattaaaagaagtctgcaagatgctgattcacatgcgtcatccagaggtgtaccagcaccttggtgtcgtgccccctcgtggagttcttctgcatggaccaccaggctgtgggaagacattacttgcacatgcgatagcaggggagcttgacttgccgattctgaaagtggctgccccagagatcgtgtcgggagtgtctggagagtctgagcaaaagctcagggatttatttgaccaggccgtgtcaaacgcaccatgtattgtgttcattgatgaaattgatgcaatcacccccaaaagagaagttgcttcaaaagatatggaacgaaggatcgtggcccagcttctaacctgcatggacgatctgaataacgtggcagctacagcccgagtcctagttgttggagctactaaccggccagactcattggatcctgctctgagacgtgcgggaaggtttgatcgagaagtctgcttgggtatcccagatgaggcatccagagaaagaattctccaaactttgtgccgaaaactgagacttccagaaacctttaatttttctcatttagcacacctgacaccaggctttgttggtgctgacctgatggctctttgtcgagaggcagccgtgtgtgcggtgcacagggtcttgatgagacggcaggagcagcagaggacagagcctgagactgggggtttgccctctgacggagagcaggggagaagcctgggagcagagcccccttctgaaacacaggatgaattgcaaaggctgttggggttgctaagagaccaagatcccatctcagaggagcagatgcaaggactgtgccttgaattaaatgatttcattgttgctctatcagaagtccagccttctgccaaaagggaaggctttgtaactgtccctaatgtgacatgggctgatgtcggtgccctggaagatatcagagaggagctcaccatggcaatattggcacctgttcgaaacccagagcagttcagggctcttggtttggtggccccagctggtgtcctcctagccggacctcctgggtgtgggaaaacgctgctggcaaaggctgtggcaaatgagtctggactaaattttatatctgtcaaaggccctgaattattaaatatgtatgtcggggagagtgagcgcgctgtgcgacaggtttttcagcgagccaagaactcggcgccctgcgtgatattctttgatgaggtggatgccttatgcccccggagatcagaccgagaaacaggtgctagtgtccgtgtggtgaatcagctgctgacagaaatggatggtttagaaacacgccagcaagtttttattttggctgccactaatagaccagatatcattgaccctgctattctgcgccccggccggctggacaaaacactctttgtgggtttgccacccccagcagaccgtgttgccatattaaagactattacaaaaaatggcaccaaacctcccctggatgaagatgtagatttggaagcaattgctaatgaccatcgttgtgattgctatacgggtgcagacctttctgctttggtccgagaagcttctctctgtgccctgagacaagaaataacaggacagaagaatggcattggaacagctgagctgacggtcagtcataagcactttgaagaagctttcaggaaagtgaaaccatccatatcagtaaaggatcaaaggatgtacgaagctctacagaggtccctcagtcagtgacgtccacgcccagtgcgtgggactcaccacgaaccacactcacctgacgggtctgctttcaacttgacacaggtggtcttcttgtaagcatttcattttcaagttaatgaggccaaatcgaagaaaatggtgtttcctatctgaccagctttgtggaaaaactctctacctcctttttaagaaagagaaaaaaagaaatgataaaaccttattcaaataaaattttattttgaactatcttgatcacgcataaacagtttccttgagaattgatcaccttacatcccatcatctcagttacacattcatatcagaacatttttctgcattaccaaccatcagtacattgacacattgctacagtttcactccaatcagtcttactcagctcttctgatgtcatttatagtagagggatctggtctaagttacctattccagtgtgttaagtcttccttagagtttccacaagtttttgttgttgctggattttgcgttttgtttggggatagtttgtatgtacccctgtctggcctggaacttactgtatagagtaggctggcctcagactcccagagttctgtgtgcctctgcttcctgagtgctgcgattaaaggtgtgtgccccatatccagcttttctcccgttcttaggtcagtgattggattggcttaattttatctccttgaagatacatagtaaagccagtctcggcatcctctcaggcgctaatacagctctctggtccttcaaactgtccctgcagtcacttgattcacgtggtctaggaggctcctacactgcagtcactgcttttcctttttaattcactcctgtgttgggaagataatttcccttctcatacatgtgttccaccctcgccagatccaggggagagtgtttttcagtgttttattcatcgtcatgttggatgttcagattgtctcgaattgtgtctttagtgaatctctaagctaatgttttatgaggaagtttatgctgtgtcatggttatttcaaccagccattcaagcattgctgttgctgtacaaacaggtctgcttatttcattctcttcctaaatttttttttttttttggttctttttttcggagctggggaccgaacccagggccttgtgcttcctaggtaagcgctctaccactgagctaaatccccagccccctcttcctaaatttttattctatctctttctgcaaagtctttgaggttccttttaagaatttaagaatgatggagctgaagaaatggcttagtaattaagagtacatactgctctttcagaggaccaagtttgattcccagcacctacataggcagctcaaaactgcctgtactcctagctacaggaggtcctgcatttctggcttccacattacctgtgctcacatgtgtataacaccctccccccacacacacccccaacactttttagaaattaaacatttttataaaaccaatgaaattgataatgggttggtgaaatgattcagcaggtaaaaacacttgctaccaagcgttacaacctgatcttgatcctggggagtcacgtggtgggaagaactaactcctaaaagctgtactctgaccctgtggatctcagtcgagatctctctctctctctctctctctctctctctctctctctctcacacacacacacacacacacacacacacacacacacacacgcaaacacacacattaaattggaaaaatacaactgaaataaaattagagttatggttgcaaaggtcaacatgacctttatcatggggacttggcagaggtttataggtacagaatgacactgttcaatgaagaacgtaaaggaaacaactggatcccagaatgagggcgattggagagttagaaataagtgccagaaaaacctttaatagtgagcctgagctgttgagcctgatgccacacttgctgtatgccaaatgaaaacgctgtctgccatgtcggatcttctcgacaactgaatgctgggtctaagtgcatgtattcctggtgacctggacataaaatgcaggttgtgtctgctgtggtacaagtggaacagaagtcagttactgagcagaaaatggattacaacatttcttcaaatagcaccttttgaacatactctgtggagtgcttgacactcgtgtgtcttatgtggtgttcccagctcagtaggctcttttcacatacacactttatagaaatgaagatggagagtttgctaatacaagaggagtggaggctggtggcttcataaattggcactcggaagtgctgttaacgtcttggttggggatgtttctttaccaattttttcatgactggctcacctgtgcccttttgtacaagaacccttgaggacctgttcttccaacttaaggataagaagcttacttaggggttggagaaagagcacagcagttaagagttcagttcccagcaaacatggtggctcacaaccatctgtcatggggtctggtgccctcttcctggtgtttgttgtacataaagacagctatagtgtgctcacgtacacaaataacatctttaaaaaaagtgcctgtgtgggagtgcccagaagtactgccctgatggggaaagatagcaccttagactcaatttcaggttgctctgctgtctgccagtgaacttacctgactatcttgtcagggtccttagccggccctaagccggcccgctgagtgtggcagcacattcagggttttctgtgactgacatccttatagctttcgcctttataaatgctgcatctgtgagctttgggtcaaaacttctttgtgacaagagcctgctctctatcttaaataaagactgcttgcttggcctta
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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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