2024-11-01 08:31:32, GGRNA.v2 : RefSeq release 226 (Sep, 2024)
LOCUS NM_001170471 6199 bp mRNA linear ROD 30-MAR-2024 DEFINITION Rattus norvegicus zinc finger CCCH type containing 13 (Zc3h13), mRNA. ACCESSION NM_001170471 XM_001072035 XM_224295 VERSION NM_001170471.1 KEYWORDS RefSeq; RefSeq Select. SOURCE Rattus norvegicus (Norway rat) ORGANISM Rattus norvegicus Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus. REFERENCE 1 (bases 1 to 6199) AUTHORS Wen,J., Lv,R., Ma,H., Shen,H., He,C., Wang,J., Jiao,F., Liu,H., Yang,P., Tan,L., Lan,F., Shi,Y.G., He,C., Shi,Y. and Diao,J. TITLE Zc3h13 Regulates Nuclear RNA m6A Methylation and Mouse Embryonic Stem Cell Self-Renewal JOURNAL Mol Cell 69 (6), 1028-1038 (2018) PUBMED 29547716 REFERENCE 2 (bases 1 to 6199) AUTHORS Yue,Y., Liu,J., Cui,X., Cao,J., Luo,G., Zhang,Z., Cheng,T., Gao,M., Shu,X., Ma,H., Wang,F., Wang,X., Shen,B., Wang,Y., Feng,X., He,C. and Liu,J. TITLE VIRMA mediates preferential m6A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation JOURNAL Cell Discov 4, 10 (2018) PUBMED 29507755 REMARK Publication Status: Online-Only REFERENCE 3 (bases 1 to 6199) AUTHORS Horiuchi,K., Kawamura,T., Iwanari,H., Ohashi,R., Naito,M., Kodama,T. and Hamakubo,T. TITLE Identification of Wilms' tumor 1-associating protein complex and its role in alternative splicing and the cell cycle JOURNAL J Biol Chem 288 (46), 33292-33302 (2013) PUBMED 24100041 REFERENCE 4 (bases 1 to 6199) AUTHORS Baltz,A.G., Munschauer,M., Schwanhausser,B., Vasile,A., Murakawa,Y., Schueler,M., Youngs,N., Penfold-Brown,D., Drew,K., Milek,M., Wyler,E., Bonneau,R., Selbach,M., Dieterich,C. and Landthaler,M. TITLE The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts JOURNAL Mol Cell 46 (5), 674-690 (2012) PUBMED 22681889 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from BC158717.1 and JAXUCZ010000015.1. On or before Dec 20, 2009 this sequence version replaced XM_001072035.1, XM_224295.4. Sequence Note: This RefSeq record was created from transcript and genomic sequence data because no single transcript was available for the full length of the gene. The extent of this transcript is supported by transcript alignments and orthologous data. ##Evidence-Data-START## Transcript exon combination :: SRR26360194.374363.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA5760383, SAMEA5760386 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## RefSeq Select criteria :: based on conservation, expression, longest protein ##RefSeq-Attributes-END## COMPLETENESS: complete on the 3' end. PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-1137 BC158717.1 1-1137 1138-1244 JAXUCZ010000015.1 57053493-57053599 1245-1552 JAXUCZ010000015.1 57059024-57059331 1553-2194 JAXUCZ010000015.1 57060573-57061214 2195-2386 JAXUCZ010000015.1 57061659-57061850 2387-2987 JAXUCZ010000015.1 57064781-57065381 2988-3091 JAXUCZ010000015.1 57066908-57067011 3092-4288 JAXUCZ010000015.1 57067297-57068493 4289-4801 JAXUCZ010000015.1 57068926-57069438 4802-4954 JAXUCZ010000015.1 57072877-57073029 4955-5155 JAXUCZ010000015.1 57073944-57074144 5156-5319 JAXUCZ010000015.1 57076100-57076263 5320-6199 JAXUCZ010000015.1 57080322-57081201 FEATURES Location/Qualifiers source 1..6199 /organism="Rattus norvegicus" /mol_type="mRNA" /db_xref="taxon:10116" /chromosome="15" /map="15q11" gene 1..6199 /gene="Zc3h13" /gene_synonym="RGD1307729" /note="zinc finger CCCH type containing 13" /db_xref="GeneID:305955" /db_xref="RGD:1307729" exon 1..294 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 295..420 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" misc_feature 295..297 /gene="Zc3h13" /gene_synonym="RGD1307729" /note="upstream in-frame stop codon" CDS 304..5490 /gene="Zc3h13" /gene_synonym="RGD1307729" /codon_start=1 /product="zinc finger CCCH domain-containing protein 13" /protein_id="NP_001163942.1" /db_xref="GeneID:305955" /db_xref="RGD:1307729" /translation="
MSKIRRKVTVENTKTISESTSRRPSVFERLGPSTGSTTETQCRNWLKTGSCLYGNTCRFIHGPSPRGKGYSSNYRRSPERPTGDLRERMKNKRQDVDSESQKRNTEESSSPVRKESSRGRHRDKEDIKIVKERTPESEEENVEWETNRDDSDNGDINYDYVHELSLEMKRQKIQRELMKLEQENMDKREEIIIQKEVSPEVVRSKLSPSPLRKSSKSPKRKSSPKASSAGKKERKAAVVASPLLDQQRNSKSNQSKKKGPRTPSPPPPILEDIILGKKYKEKYKVKDKIEEKPRDGKDRGRDFERQREKRDKPRSSSPGQHHSPLSSRHHSSSSQSGSSIQRHSPSPRRKRTPSPSYQRTLTPSLRRSASPYPTHCLSSPQRKQSPPRHRSPMREKGRHDHERTSQSHDRRHERREEARGKRDREKDTREERESEHDHRDDREPRDSRDRRDTRDRRELRDSRDMRDSREIRDYSRDTKESRDPRDSRSARDVHDYRDREARDAHARDVRDVRDARDARDVRDVRDVRDARDVRDVRDARDVRDARDVRDVRDVRDVRDTRDARDARDARDGHRKEDVYQEEARSYGRNHLREESSRVELRNDSRNESRSEIRNDRMGRSRGRGPELPEKGGRSTRGSQMDSHSSGSNYHDSWETRSSYPERDRYPERDTRDQARDSSFERRHGERDRRDNRERDQRPSSPIRHQGRSEELEREERREERRIDRVDERRDERVRDRDRERERERERERDREREREREKERERELERERAREREREREKERERERERERDQRDRDHDREREREREREREKEREREERERERERERERERERERERERERERERERERAREREKERERQREWEDKDKGRDDRREKREDVHVREDRIPRDGHEERKSKKRYRNEGSPSPRQSPKRRREHSPDSDTYHSGDDKNEKHRLLSQVVRPQESRSLSPSHLTEDRQGRWKEEERKSERKESSRRYEEQELKEKLSCGDRQREQTESVDGGSRARSAQDLLSHRQAEDRDRDGSDRAHDEKKKAKAPKKPVKKKREEDVGIERGNPETHEDSQVFSPKKGQKKKNIEKKRKRSKGDSDVSDEEAAPQSKKKRGPRTPPLAIKEELIEISTDKEGILEDPLKKEDTAFSDWSDEDVPDRTDGLEAEHTAAAATPGSTPSPMSSLLPPPPPVAAAGTAATALAASAISATTSTTISSSGATSNINASEDSHRKCHRARGEKVEVSHVTLEDTPHRKLVDQKRSSSLGSNRSHRSHTSGRLRSPSNDSAHRSGDDQGGRKRVLHSGSRDREKTKSLELTGERKSRIDQLKRGEPSRSTSSDRQDSRSHSSRRSSPESDRQVHSRSGSFDSRDRLQERDRYEHDRERERERRDPRQREWDREADKEWPRTRDRDRLRERERDRDKRRDLDRERERLVADPMERDRERDRTFETSQLESVKRSEVKLESEHDRDLEGSSRDSVALDKERMDRDLGSAQGFEDVSKAERTESLEAGDDESKLDDAHSLGSGAGEGYEPISDDELDEILAGDAEKREDQQEEEKMPDPLDVIDVDWSGLMPKHRKEPREPGAALLKFTPGAVLLRVGISKKLAGSELFTKVKETCQQLLEKPKDADSLFEHELGALNMAALLRKEERASLLSDLGPCCKALCFRRDSAIRKQLVKNEKGTVKQAYTNTPMVDNELLRLSLRLLKRKTSCHTPGQEKTEDGKLAPCSGQQELCVS"
misc_feature 427..492 /gene="Zc3h13" /gene_synonym="RGD1307729" /note="Zinc finger C-x8-C-x5-C-x3-H type (and similar); Region: zf-CCCH; pfam00642" /db_xref="CDD:459885" exon 421..530 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 531..642 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 643..751 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 752..891 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 892..1046 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 1047..1244 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 1245..1552 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 1553..2194 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 2195..2386 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 2387..2987 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 2988..3091 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 3092..4288 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 4289..4801 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 4802..4954 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 4955..5155 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 5156..5319 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" exon 5320..6199 /gene="Zc3h13" /gene_synonym="RGD1307729" /inference="alignment:Splign:2.1.0" ORIGIN
cttttagatgcttcctatgtagaggcccgatggagttgcgggtttagcgcgttgctctgcagcggcctctgtacgtctcatctggtgtccggagctccctggagcttggcgaagatctgggcggctccgctgctctctgttcccggcgtccgcccggttgaggagagcgggcccctgggagtcgcgcgtgcacgtcttctccgtcgtcctcccggggcggggcgcggggacagcggagctgaggcgtccgggacatcctgaagactgcgcttactaagggtgcttagagaggagtagttcaaaatgtcaaaaattaggaggaaggtcacagtggaaaacaccaagaccatatctgaaagcacatcccgaagacctagtgtgtttgagaggcttggacccagcactggaagcacaacagagacacagtgccgtaactggctgaagaccggcagctgcctctatggaaacacatgtaggttcatacatggcccttcacctcgtgggaaaggttacagcagcaattacagaaggtcaccggaaaggcctacaggtgatctcagagaaagaatgaagaataagcgtcaggatgtggattctgaatcccagaaacggaacacagaggagtcatcctcacctgttaggaaagaatcttcaagagggagacatagagacaaggaagacataaaaattgttaaagagagaactccagaaagcgaagaagaaaacgtagaatgggaaaccaacagagatgattctgacaatggagatattaattacgattatgttcatgagttatcattggaaatgaagcgtcagaaaatacagagagaattaatgaagttggaacaagaaaacatggataaaagagaagaaattattattcaaaaggaggtttccccagaagtggtgagatcaaagttgtctccatcacctctgagaaagtcgagtaaatctccaaagcggaagtccagccccaaggcatcttcagctggcaagaaagagcggaaggctgctgtggtggcttccccgctgctggaccagcagagaaattcaaaaagcaaccaaagtaaaaagaaagggccacgcactcctagtccacctcctcctatactagaagatatcattctgggaaaaaaatacaaagaaaagtataaagtgaaagacaagatagaagaaaaaccaagagatggaaaggacagaggacgggattttgaaaggcaaagagaaaaacgagacaaaccaaggtcttcctccccgggacagcaccattctcctctgtcttctagacatcactcgtcgtcctcacagtcagggtcatctattcagagacattctccctctcctcgccggaaaagaactccttccccatcctaccagaggactttaactccatctttacgacgttctgcatctccttatccaacccattgtctgtcttctcctcagagaaagcaaagtcctccaagacatcgctctccaatgagagagaaagggaggcatgatcatgaacggacttcacagtcacatgatcggcgtcatgaaaggagggaagaagctcgaggcaaaagggatagagaaaaggacaccagagaagagcgagagtctgaacatgaccacagggatgacagagaaccgcgagacagtcgggaccggagagacactagagaccgcagggaacttagagactccagagacatgcgggactccagagagataagggattatagcagagacaccaaggagagccgtgatcccagagattcccggtcagctcgggatgtccatgactacagggaccgtgaagctcgggatgctcatgctcgagatgttcgggatgtcagggatgctcgagatgctcgagatgttcgggatgtccgggatgtcagggatgctcgagatgtccgggatgttcgggatgctcgagatgtccgggatgcccgggatgtccgggatgttcgggatgtccgggatgtccgggacaccagagatgcccgggatgcccgggatgctcgagatggtcatcgaaaggaggatgtataccaggaagaagcccgtagttatggcagaaaccacctgagagaagagagttctagagttgaactaaggaatgactctagaaatgagtctcgaagtgaaattagaaatgaccgcatgggcagaagtagggggagaggtccagaactgcctgaaaagggaggtcgaagcacaagaggttcccaaatggatagccacagtagtggcagcaactaccatgacagctgggaaactcgaagtagctatcctgaaagagacagataccctgagagagataccagagatcaagcaagggattcttcctttgagagaaggcatggagaaagagaccgtcgggataacagagaacgagatcaaagaccaagctcacctattcgccatcaggggaggagtgaggagcttgagcgagaggaaagaagagaggaaagacgaatagacagagtggatgagagacgagatgaaagggtcagagacagagatagggagagagagagagagcgggagagggagagagatcgggaacgggagcgggagcgggaaaaggaaagagaaagagaactagaaagagagagagctagagagcgggagagagagagagagaaagagagggagagagagcgagaaagagaaagagatcagagagatcgtgaccatgatcgagagcgagaaagagagagggagcgagagagggaaaaagaacgggagcgagaagagagagagagggagagagaaagggaaagggaacgggaaagagaaagggaacgggagcgggagagagagcgagaacgtgagcgggagcgagaaagggccagagaaagagaaaaagaacgagagcggcaaagagaatgggaggataaagacaagggacgcgatgaccggagggagaagcgcgaggacgttcatgttcgagaggacaggatccccagagacggccacgaggagagaaagtccaagaaacgctatagaaatgaagggagtcccagcccccggcagtcccccaagcgccggcgggagcattctcctgacagtgacacctaccacagtggggatgacaaaaatgaaaagcatagactcttgagccaggtcgtacggccacaggaatctcgttctctcagcccgtcccacctcacagaagacaggcagggtagatggaaagaggaggagcgtaaatcggaaaggaaggagagttcaaggcgctatgaagaacaagaactcaaagagaagctttcttgtggcgacaggcaaagggagcagacagaaagcgtggacggcggctcgagagcgcgcagcgcgcaagacctgctcagccatcgccaggctgaagaccgcgaccgagatgggtctgatcgagcccatgatgaaaagaaaaaagcaaaagctccgaagaaacccgtaaagaaaaagagggaggaggatgttggaatagagaggggcaaccctgagacacacgaggatagtcaagtgttttcaccaaaaaaaggacagaaaaagaaaaacattgaaaaaaagcgtaaaagatccaagggggattctgatgtttctgacgaagaggcagccccgcagagtaagaagaagaggggtccacgcacaccccctcttgccatcaaggaggagctgattgagatttccactgacaaggaaggcatccttgaggatcccctgaagaaagaagataccgcctttagtgactggtctgatgaggatgtgcctgaccgcacagacggcttggaagctgagcacactgcagccgcggccactcccgggagcaccccttcccccatgtcgtctcttctccctcccccgccccctgtggctgctgccggtactgcagccactgctcttgccgcctcagccatttctgccaccacctctaccaccatttcaagctctggtgccacctccaatatcaatgccagtgaagactcacacagaaaatgccacagggcacgaggggagaaggtagaggtgtctcatgtgaccctggaagatacaccacatcgcaaactggtggatcaaaagagaagcagcagcctgggaagcaatcggagtcaccgcagccatacctctggtcgcctgcgctccccatctaatgattctgcacatcgaagtggggacgatcagggtggtcggaagagagtgctccacagtggctccagagatagagaaaagacaaagagcctagagctcacaggagagagaaaatctaggatcgatcagttaaagcgtggagagcccagtcggagtacttcttcagatcgccaggattccagaagccacagctccagaagaagctctcctgagtcagaccgacaggttcactccaggtctgggtcatttgacagcagagaccggcttcaagaacgagataggtatgagcatgacagagagcgtgagagggagcggagagatcccagacaaagggagtgggaccgggaagcagacaaagagtggcctcggacccgagaccgtgatagacttcgggaacgcgagagagaccgagacaaaaggagagacttggacagagagagagagagactggtcgccgaccccatggaaagagacagagaacgagatagaacttttgagacgtctcagttggaatctgtgaagcgaagtgaagtcaaattggagagtgaacacgacagagacctggagggcagctcccgggactctgtggccttggacaaagaaaggatggacagagacctggggtctgcgcaggggtttgaggatgtgagtaaagcggagagaacagagagtctggaagcaggagatgacgagtccaagttagatgatgcgcattcgttagggtctggtgctggggaaggctatgagcccatcagtgacgacgagctagatgaaattctggcaggggatgcagaaaagagagaggaccagcaggaagaggagaagatgccagatccattagatgtgatagatgtggactggtctggactaatgccaaagcatcggaaagagccgagagagcccggggctgcactcttaaagttcacacccggagccgtgctactacgagttgggatttctaaaaagttggccggttctgagctctttacaaaagttaaagaaacatgtcaacaacttctagagaaacccaaagatgcagacagcctttttgaacatgaactaggggctctcaacatggctgctttacttcgaaaagaagagcgggcgagtctccttagtgacctgggaccatgttgtaaagcattatgtttcagacgggattctgcaatccggaagcagcttgtgaagaacgaaaagggaaccgtgaagcaggcgtacaccaacactccgatggtggacaacgagctgcttcggctgagtcttcggttactcaagaggaagacttcctgccacacccctgggcaggaaaagactgaagatgggaaattagccccgtgcagtggccagcaggagctgtgtgtgtcctaggcagagattgaggacggcccgtttgctctctcttcacaggagtgcataatctttctcaaagttttttgttttgagacattgctaattacagagacagaagagtcaccggccacatcagatgtgaagaacttcagtcttcagagacaccagttttggttcatttaagattttacattaatttttatacagtaattgacactcaggcaaaataatgtgaaaatgtctagatttagtaatttcgtctgtgtcttcattaaaattgaagattttaagtaaccaggtcacccctgctcttccagcctatgaatacttcctatgaaataaaagcactgatttttattctggatcaccacgcagaactgaccgtagtcagaaaggtgtgtcgctagaggctgctgcacaggctgcagtgccgtgtacagagctctgaggtgcgccggccttgcgagtgcgcccggaggcagtcttcacaaggaaaccccagtgggtttgcttttttcttttgaaaattctaaaataaatgactccatgggatttttttttacacatgtacattgctacattatatattggaagtctttggacttttgagtggggtttaattgttcattatcagagactgtgtgctattttatttttaataaatgtacgttcccttttcttgttgtagattttccttgctctttattaatcagactccagacactga
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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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