2024-04-29 04:10:38, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_039087488 11525 bp mRNA linear ROD 11-JUN-2023 DEFINITION PREDICTED: Rattus norvegicus trinucleotide repeat containing adaptor 6C (Tnrc6c), transcript variant X5, mRNA. ACCESSION XM_039087488 VERSION XM_039087488.1 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_051345.1) annotated using gene prediction method: Gnomon, supported by mRNA and EST evidence. Also see: Documentation of NCBI's Annotation Process ##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..11525 /organism="Rattus norvegicus" /mol_type="mRNA" /strain="BN/NHsdMcwi" /db_xref="taxon:10116" /chromosome="10" /sex="male" /tissue_type="kidney" /country="USA: Wisconsin, Milwaukee, Medical College of Wisconsin" /collection_date="2019-03-08" /collected_by="Rebecca Schilling" gene 1..11525 /gene="Tnrc6c" /note="trinucleotide repeat containing adaptor 6C; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 53 ESTs, 2 long SRA reads, 7 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 24 samples with support for all annotated introns" /db_xref="GeneID:303774" /db_xref="RGD:1310027" CDS 6359..9028 /gene="Tnrc6c" /codon_start=1 /product="trinucleotide repeat-containing gene 6C protein isoform X5" /protein_id="XP_038943416.1" /db_xref="GeneID:303774" /db_xref="RGD:1310027" /translation="
MPNVHSKAENSWGEPSSPSTLVDNGTAAWGKPPSSGSGWDHPAEPVVPFGRASAPAAATALCKPASKSMQEGWGSGADEMNLGTSQWEDEDGDMWNNAASQESSSSCSSWGNASKKGLQKGMKTPGKQDEAWIMSRLIKQLTDMGFPREPAEEALKSNSMNLDQAMSALLEKKVDMDKRGLGMTDYNGMVTKPLGCRPPISKESSMDRPTFLDKLTLSFSNQDGGLVEEPTTSPFLPSPSLKLPLSNSALPNQALGGIASGLGMQNLNSSRQIPSGNLGVFGNSGAAQARTMQQPPVQPLNSSQPSLRAQVPQFLSPQVQAQLLQFAAKNIGLSPALLTSPINPQHMTMLNQLYQLQLAYQRLQIQQQMLQAQRNVSGPMRQQEQQVARTITNLQQQIQQHQRQLAQALLVKQPPPPPPPPHLSLHPSAGKPGMDSFPPHPQAPGLPDLQTKEQQSSPNTFAPYPLAGLNPNMNVNSIDMSSGLSVKDPSQSQSRLPQWTHPNSMGNLSSAASPLDQNPSKHGAIPGGLSIGPPGKSSIDDSYGRYDLIQNSESPASPPVAVPHSWSRAKSDSDKISNGSSISWPPEFHPGVPWKGLQNIDPENDPDVTPGSVPTGPTINTTIQDVNRYLLKSGGKLSDIKSTWSSGPASHTQASLSHELWKVPRNTTAPTRPPPGLANPKPSSTWGTSPLGWTSSYSSGSAWSTDTSGRTSSWLVLRNLTPQIDGSTLRTLCLQHGPLITFHLNLTQGNAVVRYSSKEEAAKAQKSLHMCVLGNTTILAEFAGEEEVNRFLAQGQALPPTSSWQSSSGGSQPRLGTSGSTHGLVRSDTAHWNTPCLSGKGSSELLWGGVPQYSSSLWGPPSADDTRVIGSPTPLNTLLPGDLLSGESI"
misc_feature 6425..6754 /gene="Tnrc6c" /note="Argonaute hook; Region: Ago_hook; pfam10427" /db_xref="CDD:431279" misc_feature 6761..6874 /gene="Tnrc6c" /note="UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins; Region: UBA_TNR6C; cd14283" /db_xref="CDD:270469" misc_feature 7025..7702 /gene="Tnrc6c" /note="M domain of GW182; Region: M_domain; pfam12938" /db_xref="CDD:432890" misc_feature 7727..8491 /gene="Tnrc6c" /note="TNRC6-PABC binding domain; Region: TNRC6-PABC_bdg; pfam16608" /db_xref="CDD:435458" misc_feature 8477..8740 /gene="Tnrc6c" /note="RNA recognition motif (RRM) found in vertebrate trinucleotide repeat-containing gene 6C protein (TNRC6C); Region: RRM_TNRC6C; cd12713" /db_xref="CDD:410112" ORIGIN
ggtcataccattggtgtgtactccgtgtctgtgtgaattctccgacggatactcttgtagcaaatgactaaatagtgtagctgttttccagggataagaagtgctgggtggcatgctccatgctaccgggctccagccagtgtggtccttctcatgcttccaacagcaacaggctaagtgttaattttgtttcaagtttccctgtatagtactctgcttgtctgggttctgtcagttatggaatcattgggcaattgaagttcttttataggagcagctctaaagcctttctgccatgtggctgtaatcagggcctgcctatcacctgttagaggttttgtgcatctccttggctttgcccggttgatggagctttacttgatcatagtcaccatctacaagcacaagctcattcttctgccctgcagtatgcagctggtctggggctgccctgtaccacggtccagccagcctctgcatgagtgcccaggagtggtgagggaagaagcacagtcctcctcagggaagcctgggggcctcacattattgtgtgtgcttctgcaagatgtcttctttaccaggtagaacaagtggttctcagtccttaagttgccttggtgtttgatgagataggctctcagtcccagagaatctgattgatgaatctgcgcaaagctattcactggtagttttaaagatccgccctgaaaatgagataatgtctcaggtaaaacatgagagtcattaaacaagtatttttatttcagttgcaagtcaaatgctaaaatcagactaagatttatgtttgaagtttgtgctctgtaaaagtagaaaagaagattctgggataacccagcaggagccacaggaagctcaggtagctgggagagaagaggagcctgtgtcaaagcacgagtgacatgggtgggatgcagttgggctttggagaagcggcaggagccctaggcttctaactggaatattggtacaaagtgctgtgatttccaagcacaaagtcggcctgattcttaagaactgcactcatcaaatgacagcacttgtgtgtttaagggaatactgtccagttcacagcaaagctgtgttctgacatcagatacaagtgaggaactagaagaggcttcgaagagaccttgccccacagattgacttcctggcctcctcttccttagccctgaatcagccttgtctgtgtaatagcacttagaactctatccttgaggccgtattgcagaacttgaacaatgactgaggtcactgtgtctctgcgcccatttgcaggagcccctcaggtgacaagcagtatcctgcagtgatactttggtgggttcagtggtctgggaagcgctgagattgcgcatgcccccccggagctgttggcctgctgtagatatgtgccacacggcattgctcagactgcagctccttgtcacagagctgcacatgtgcctctcagattaagtttaaagtcaggtggcttcttggtaaagctactcaattctgacacctgcttttccacatgtgtcactgagtcccaggtgtacatccctgctggtggttttagcttttcctttttgtttgtcttttttttccggggtttgtgggggggtggttaattctttaagaatttggggtgtgtgtgtagatgtagtgtgtttatgtgtatttgcatgttcacatgtatgtggacatgagagtgagtgggtgtacaaaaatattattacttgtcagaggttgatatcaggtgtcttcagtcacgtcccaccttgtgtattgagactcagcagtccacctagatagcttgccccgtggatcccttcttccactcctgtgcacggcattgcaggaaggcctaaagtatagtctgattacttgttttttttttgttttttttttttttttccggagctggggactgaacccagggccttgtgcttgctaggcaagcgctctaccactgagctaaatccccaaccccagtccgcttacttggacacagccattttacctactgatccccctgagtttacatgtaccataaaaggcaagaggaggacgtctttccacctaggcatcttaaggtttcttcatagtcatcccgagcccagtgtacaagagtgtcacttccactagtggtcttggtagagtctgctcagagaggctgttagagtaggtgctgagtgctggatgactgccgaatgtaaactggcatctgtggcctcaggatggctcaacaggtgaaggtgtttgcctctcagccttgtcagcatttggttcctggagccatatagtagggaaagaaccaataggttattttctggcaatactagtcttatctcctcaaaaataaggaattgtaatttaaaaaaaaacaaacaaaacaaaacaaaaaaacatgtaaagatgtgagcttaaagcactatcctggccaatcagacttctgaacaagagtgagtggacagacggtcagcagcagccttgctccatgccataaccagaaacagtcgcaagctctttgtatcctctgctccccttccatgatgtagacagcgacaaatgggaggaacaggtaggaattcttgagtagttggacatcatgaagaaggtcttacagcaataagcaccctgcaaagaggcccaagggcaagtgaggcttttgtaggcatctggacagtgtctggaggccacagggcatcatgaaccggttctgagcagagtctgaaagcttaggcttaaactggtcattctgactcaaaaacatttgtgcagggaagcctgtggtggcagttgggggtttggggaggatatatatcctcagggaagagggggtaggggatgacaccaaagtatgtacttgaaagttgagatctcagcatagagttagctgaaaagacctctgtgggaaagtaactgaataagtaattatggttaacaaaacattacttagaggctagagagggtaggtgcactgaggtacagctcagtgaacaagccctttgttaacatactgaaggccattgggttcagttcccaccccacaaagagaatgcttcaggtagcagaactggacacgtttaaaagctagtagaaaggggtgtgtagagagcacggatgcaaatggaaaggccccgctgtttatcaggtaagtgacccactcgaacctgtacatgaggtaaggacgagtgcccaaccaggccatcttagtggccaggggcttgagggcatcaacactagccgtgaggggagagaaggtatgaaagcagagatgtgatgtctgactgtacccagagagctgtctggtaatgacataccaataaggagtaaaatggtcgtcatttaacctatgtggagcctacagccaatgaggaatccaaacgaggtgaagtctgtgacaggagggaggatgatacgagccagggaggccatgcatgtttaagggtcaagcctgggcatagaacagctcctggacttggggtgggaggagtatcccttctgtgtccatctgcactggcggctgctttagcatctgaatatctggctcctggtttgatgatgtatatacatatgtctgcataagatatatgatcacatgagtacaagtgccctcaaaggtcagagacattggattccttggagaagttacagacccgttgtaaggtgcttggcatggctgctgggaactgagctcaggacctctgggagaactgcacgtgctcttaactgctgagccgtctctcaggtcctggttcctgatttgtaactgacaaatgactgctgctaagcactccaatctcaaggacttgaaagaatgaagaaaatgaggaaaggtaactggtgagggtgggggaactaaagctaaacatagtggtgcatacctttaatcctagcactcaagaggtagagacttgtttctgtgagttcaaggccagcctggtttatatagcatctaggaaagccagaaaaagcagaatttgaaaattaaaactcagtgtatggaatatatgttataatatatacatccttgtaatctcagccctcagaaggcaatggcagaaaggtgagaagtttgaagccaccctagactatgtaaattccaggccagccagagctgcaggtgagaaactggttgaaaacaataaatgatacagtgtagcagaagagaggccagtactatgtctctgcattgtgatctgtatgtggtaaaaatagaaagggtttgaaaagagttctttaaaatggccaccacaagctggggctggtgccaagctccaggacagccagagtttcatagtgagaccctgtctcaaaaaaagaggggttgggggtatcaccatggccctcatagcatgatgaatagtcccaccatatatgcacatgtgtgcactcaggtgtatgtaaatgtgtgcacatgtgtatggagactggaggacaacctcaggtgtcatcctaaagaatgcctaagaggtagtgactcacaggactagagctcaccaatttgactagattggatcttactgtctttccagtactgggataaaatcttactgtgtaactgtaaagcacacatgactaccaaatataaaagaaagataaactattgactactccttccacgtgcaaagcttggcttcccagaccttgtgttccactccagcttctggagtctgcagtattttagaagcttctgtgaatttagacaccattaacaaagacaaaatcatgtttcttctatctggtcagcccctgcagagaaacggtcaagttcggtgtatggtatagcaagtgatgttgtcatatatttttcttatagtgtcagtctctcctctcccacggggacagagtgaccacactttgccccacattgcctatggtattcaaatctcagacctaaagcaggctacctcagaattgcaaggaaccagagcccgtgttttttgtttgtttgtttgtttgttttggtttttgtttttttgggggggagtggggttttttttttgcaagcttgttaagtgaaactgttctttgaccccagagaagtagcaagcaggatcccacacagactactgtatgatagccatagcagttgccaagcaggatcagacaggctgaagcacaggcatagacttttcatagctctcctcagatccttcattccaggaaaagcatcacttttagtggttgaccatgtttttgcagttaataaagttggtattttgtaggaattctgatttgcttttgacctgtgctgcttttatgtcatttctatttatgtcagaaaatacagcttctctatgaacataattttgtgtatcagtcttacagaggtaaatgctacaagacagttttggcctgttcttatattgatactgagtttccaggagtctatgtaaaacccgtgtgtgttaggaaattctttgaaatttggctaactggattgtttggacctgacccagtctcactttggggttagaacagtgataattgcctgaagaagtgtccctgtacctactattttatcagttcccaactgtttgtggaggcccacaggctctgctgatacaggatacaaagtcacagctctgcactggtgtggagtcactgtctcctcctgatatcttgtgaatctggctgtctggagggacctgaagctgttacatcagctggcagccaagctgctattttgacctctaataggaaatggctgagaacaagaaagagaaaagacagaagttgtttgtttctaagggggtaaagcagattgtgaaaaatgccaggcagcccggttatctagtctaactggagataagtgttccctagcagtcaattagcttgcaggcacccaagaagcagtaaatattaataagacagaacaataagtactgttcagaggactgtcctcagtgctagatgagtttcaaaaatgctactgtgggatttggattgaattaggttttgttttgttgctaaagggctgggtttctagttctgtacaggctgacctcagacctgcagctactctctcaccagcctgtttacttcatccctgagcactgctgtttctcctaaatgctctgaccacttttagagggattggtgctggggaaaggtgcatgcagagggcagcatagagctgatccaggcaagagcagtgacctcccatctcccattggctcatggagaccaactgtgagcacagtttcagtttgtcccgttctggagcctgtagttccgtgtgagagtcctgaaatctgaacgagggaagattgctcttgggaagctgattcaggagtcctgcatcctacctgaggcagctgagacagtttcgtctggctggggagagatgcccaatgttcactccaaggctgagaactcctggggagagccatcttccccttctaccctggtcgacaatggcacggcagcctgggggaagcctcccagtagtggcagtggatgggatcatcctgctgagcccgtggtgccatttggaagagccagtgctcctgctgctgccacagccctgtgcaaaccagcttccaaatctatgcaagaaggctggggcagtggtgcggacgaaatgaacctgggcaccagccagtgggaggacgaggacggggacatgtggaacaatgctgcctcccaagaaagcagctcatcctgcagctcctggggcaatgcctcaaaaaaaggacttcagaagggcatgaagacgcccggcaagcaggatgaggcctggatcatgagccggctgatcaaacaactcacagacatgggcttcccgagagagccagctgaagaggccttgaagagcaacagtatgaaccttgaccaggccatgagtgctctgctggaaaagaaggtggacatggacaaacgtggactgggaatgaccgactacaatggaatggtcaccaaacccctcggctgccgcccaccaatctccaaagagtcttccatggaccgccccaccttccttgacaagctcaccctttctttctccaatcaggatggcggcctcgtggaagagcccacgacttcaccgtttttgccttccccaagcctgaagctccccctttccaacagtgcactccccaatcaggccctgggtgggattgcctcagggctgggcatgcaaaacttgaactcttctagacagatcccgagtggcaatctgggtgtgtttggcaatagcggagcagcacaagccaggaccatgcagcagccgccagtgcagcctcttaattcctcccagcccagcctccgagctcaagtgcctcagtttctatcccctcaggttcaagcacagcttttgcagtttgcagcaaaaaacattggtctcagccctgcactattaacctcgccaattaaccctcagcatatgacgatgttgaaccagctctatcagctgcagctggcataccaacgtttacaaatccagcagcagatgttacaggcccagcggaatgtttccggacccatgaggcaacaggagcagcaagttgcgcgcacaatcactaatctgcagcagcagatccagcagcaccagcgccagctggcccaggccctgcttgtaaagcagcctccacctccgccacccccgccgcacctgtctctgcacccctctgcaggcaaaccgggcatggatagcttccctcctcacccccaggctcctggcctccccgacctgcagaccaaagagcagcagtcttcacccaacacctttgctccttatcctcttgccggattgaacccaaacatgaatgtcaacagcatagacatgagcagtggtttgtctgtgaaggacccatctcagtcccagtcacgcctgcctcagtggacacatcccaattccatgggtaacttgtctagtgctgcttctcccctggaccagaatcctagcaagcatggtgctatccctggaggtctaagcatcgggcctccaggtaagtcctctattgatgactcttacggccggtacgatttaattcagaacagtgagtcaccagccagtcctccagtagctgttccccatagctggtcacgtgccaagtctgacagtgataaaatctcaaatggctccagcatcagctggcccccagagttccaccccggggtcccatggaaaggacttcagaacatcgatcctgagaatgaccctgatgtcactcctggaagtgtccctactggacccaccattaacaccaccatccaggatgtcaaccgctacctcctcaagagtggaggtaagctgtccgatattaaatcaacgtggtcctcaggcccagcttctcacacgcaagcctctctgtctcatgagctgtggaaggtacccagaaacactactgcacccaccaggccacctccaggcttagccaatcccaagccttcctctacctggggcaccagccccctcggctggaccagctcctactcctcgggttctgcatggagtactgacacctcaggaagaacaagcagctggctcgttctgcgcaatctcacaccccagatcgatggttctacactgcggacgctgtgtttgcagcatgggcctctcatcacattccacctgaacctgacccaaggcaatgctgtggtccgctacagttccaaggaggaagccgccaaggcccagaagtctctgcacatgtgtgtactgggaaacaccaccatcttggctgagtttgctggtgaagaagaagtgaaccggttcctggcccaaggccaagccctcccacccacctccagctggcagtccagcagtgggggcagccagcccaggctgggcacctcgggcagcacccatggcctagtgcgcagcgacactgcccactggaacaccccatgcctgagtggcaaaggcagcagtgagctgctgtggggtggggtcccccagtactcgagcagcctgtggggcccacccagtgctgatgataccagagtgatcggcagccccacgcctctcaacactctgctgcctggtgacctgctcagcggcgagtccatctaggggtcacaatcactggggagaagagagctgaccgtgccaggcccggctctgaagctccacctgatggacaagctgccccttcgagtacctctgtccagttctgaagatgaaccttggcctcagcccttgggaactgttggagacagtgcgggctgcgtttggtcagtgtcgtgtgctgacgacaggatgttcctcatagctttttattttatgtcgtcttatgtttgtacagtgtgttgtcattttgagttttaagtataaaagctgcttagaatagttctatcatgaagggcacttttcagattgtgggctggaaagggttattttatggcggggtgggtggggagacttgaagcctatttacagtgagcctgtgacgattatgcacattaccagaggcgccaggtgggacagacagcggctgcgctgtgcgggcacagagctccgtcccccggattgcctgcgcacattacccttgtttcgttaccttttcatgtcattttttttatcccaaaaaaatattttttaaaagttttaaaaaaaaaaagacatatcaaacatgcaaatacttgaacccagcaggccaacaccgaaatgtgaacacttccacattgacatccgtgcgcagagacaggctctagggaatgtctgcgttcatagcctacatgtgcgtgtgcgtgcgtgcgtgcttgtgtggaactgtgtgtgtgagcatgctcttgcacagtcagtgctcactgtgcgtgcgtgtttgagagcgtgtgagggatttaactgtgggtttccctttgattcagtacatgcttttcccctctttttttggcattggtcaaatgttctcattgttgttatttgcttctaactttgcactgaggtgtccctgcccttccgttagctaatcctaagcaggaaagagaattcacgggacagggctggtgacaattcacgtgtaaatgtttactcaaggactctgttgttgcatttaaagttacagtgtatatctctggagaaataatatgtctatctaccttcagcagcttctcattgtggactaatgcaagaagattattaccagagcattgcaccacttcccatctggactgtaaagttacagagaaaacaaaactgttgttgaactgtggccatagatacttgtagagactgggtgttccgcaaggagcgggaccaagcacttggacatgggttgtgactgcttttggaggagctgtgtttgggctcccacctgtttacagacgtttttttctccttcagactttaaaataaaattttaaaaaaaatttaaaatgttaaaaggaataaaaaaaaaagacttccatcatttaaaaaaaacaagcaaacaaacagaaacctattttcagaatacagatgtgttgcttcagagctctgggatgggacatgctgttcccctccagccatcgcggactctgttgactgtcctcaccccctcctcaaggtgaccaggccttgtggtctctgtcttgcacacgccagctcgctctcaggaacgccagggctcccgagggcggcaccacaccacttcatgtatttttaaacccaactcctagcactgaagatgttatttaaaaaaaaaaaaataaaagaaagaaaaaaaaagaaagaaagaaaaaagaaaaaaaaaccacacacacacaaagaagagaaatccctaatctctaatgtgtagcagttacatatttaccaaataatggactcaaaggaacggatgtttggagagtgctttatatattaaagttgctttatgttttaaagatgatcaatgttttgattgttttacaaggaagaaagacaatgaaataacacaccctcaagtatgttttagaaaaatatatgaacattgtactccctgcctatgtggtcaggaaacttgtgcattacattttttaattagctttttaatggttttatcaaaacaaacagaaagaaagcaagtcctgcaaggttgcagaaaagcactgttttctagaggatcaggaactatgcacaactgggttcaaaacttgttcgagttttgtcatgtatcccacggaatggccctcctcagagtgactgcgtctcatcgacattacgtgcgtcctaaatatttgatgtatgtatacccaagtatgtatatcagatgtgtgcgtgcgcacgtgtgtgcatgcgtgtgcgtgctcccagatgcacggcttaccgtgcagccattgagccctgaggtatagaaaaactcctgtttaaaaactggggatggaaggaaaggatgttttccgtttccgtgggctttaccccttttttttcctttttgaaccttttaaatttaaaatgtctctgactctaagattaaaagaaaaaagtttgtggcgcttaatgccctcctcttggaacgtgatggttggacgcacactggaggttgctttcaaaaaatacagcgctttgttgagtcttaataaactgcagtttttcttggctgttgacataa
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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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