2024-04-20 14:42:17, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001101002 6320 bp mRNA linear ROD 21-MAR-2023 DEFINITION Rattus norvegicus POU class 6 homeobox 2 (Pou6f2), mRNA. ACCESSION NM_001101002 XM_001055787 XM_001055843 XM_039096067 VERSION NM_001101002.2 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 6320) AUTHORS Yoshida S, Ueharu H, Higuchi M, Horiguchi K, Nishimura N, Shibuya S, Mitsuishi H, Kato T and Kato Y. TITLE Molecular cloning of rat and porcine retina-derived POU domain factor 1 (POU6F2) from a pituitary cDNA library JOURNAL J Reprod Dev 60 (4), 288-294 (2014) PUBMED 24804940 REMARK GeneRIF: expressed in the stem/progenitor cells of the rat pituitary primordium as well as the diencephalon and retina COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from JACYVU010000293.1. On or before Apr 8, 2021 this sequence version replaced XM_039096067.1, NM_001101002.1. ##Evidence-Data-START## RNAseq introns :: single sample supports all introns SAMEA5760383, SAMEA5760389 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-263 JACYVU010000293.1 3473027-3473289 264-435 JACYVU010000293.1 3475322-3475493 436-527 JACYVU010000293.1 3599621-3599712 528-756 JACYVU010000293.1 3602822-3603050 757-1133 JACYVU010000293.1 3741466-3741842 1134-1274 JACYVU010000293.1 3830951-3831091 1275-1481 JACYVU010000293.1 3854180-3854386 1482-1650 JACYVU010000293.1 3870381-3870549 1651-1819 JACYVU010000293.1 3879763-3879931 1820-6320 JACYVU010000293.1 3883141-3887641 FEATURES Location/Qualifiers source 1..6320 /organism="Rattus norvegicus" /mol_type="mRNA" /strain="BN" /db_xref="taxon:10116" /chromosome="17" /map="17q11" gene 1..6320 /gene="Pou6f2" /note="POU class 6 homeobox 2" /db_xref="GeneID:681092" exon 1..263 /gene="Pou6f2" /inference="alignment:Splign:2.1.0" misc_feature 228..230 /gene="Pou6f2" /note="upstream in-frame stop codon" exon 264..435 /gene="Pou6f2" /inference="alignment:Splign:2.1.0" CDS 270..2324 /gene="Pou6f2" /note="retina-derived POU-domain factor 1" /codon_start=1 /product="POU domain, class 6, transcription factor 2" /protein_id="NP_001094472.2" /db_xref="GeneID:681092" /translation="
MIAGQVSKPLLSVRSEMNAELRGEDKAATSDSELNEPLLAPVESNDSEDTPSKLFGARGNTVLPEPGTPDQHQASQTHPSFPVGPQPLLTAQQLASAVAGVMPGGPPALNQPILIPFNMAGQLGGQQGLVLTLPTANLTNIQGLVAAAAAGGIMTLPLQNLQATSSLNSQLQQLQQLQLQQQQQQQQPPPPPTSQHPQPASQAPAQSQQPQSQPTPPHQPPPASQQLPAAPAQLPQATQPQQHQPHSHPQNQNQSSPTQQSSSPPQKPTPSPGGHSLPSPLTPPNPLQLVNNPLASQAAAAAAAMGSIASSQAFGNALSSLQGVTGQLVTNAQGQIIGTIPLMPNPGPSSQAASGTQGLQVQPITPQLLTNAQGQIIATVIGNQILPVINTQGITLSPIKPGQQLHQSSQTSVGQAGTQGNLLHLAHGQASTSQSPVRQASSSSSSSSSSSALSVGQLVSNPQTAAGEVDGVNLEEIREFAKAFKIRRLSLGLTQTQVGQALSATEGPAYSQSAICRHTILRSHFFLPQEAQENTIASSLTAKLNPGLLYPARFEKLDITPKSAQKIKPVLERWMAEAEARHRAGMQNLTEFIGSEPSKKRKRRTSFTPQALEILNAHFEKNTHPSGQEMTEIAEKLNYDREVVRVWFCNKRQALKNTIKRLKQHEPTSAVPLEPLADSPEENC"
misc_feature 1677..2006 /gene="Pou6f2" /note="Pou domain - N-terminal to homeobox domain; Region: Pou; cl22952" /db_xref="CDD:451464" misc_feature order(2070..2084,2088..2090,2139..2141,2157..2159, 2196..2198,2202..2207,2214..2219,2223..2231,2235..2240) /gene="Pou6f2" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature 2076..2237 /gene="Pou6f2" /note="Homeobox domain; Region: Homeobox; pfam00046" /db_xref="CDD:425441" misc_feature order(2076..2078,2085..2087,2205..2207,2214..2219, 2226..2228) /gene="Pou6f2" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" exon 436..527 /gene="Pou6f2" /inference="alignment:Splign:2.1.0" exon 528..756 /gene="Pou6f2" /inference="alignment:Splign:2.1.0" exon 757..1133 /gene="Pou6f2" /inference="alignment:Splign:2.1.0" exon 1134..1274 /gene="Pou6f2" /inference="alignment:Splign:2.1.0" exon 1275..1481 /gene="Pou6f2" /inference="alignment:Splign:2.1.0" exon 1482..1650 /gene="Pou6f2" /inference="alignment:Splign:2.1.0" exon 1651..1819 /gene="Pou6f2" /inference="alignment:Splign:2.1.0" exon 1820..6320 /gene="Pou6f2" /inference="alignment:Splign:2.1.0" ORIGIN
gaaaaacaacaaacacacagggagaaattctggggaaatttgagaattgcccacctcctttgtcttttgtcagtctctctcttcacctcccaatgccaagtgctccaaaatccagccaacaaacccagtgcctgggatactaatctatcaccgtaaatttagattgacaatactatgggtcgaccgcattgattacattgattctatttcaaatatttacaatacactgagacaagcctaatctattttctaaagagttcaaggatccaatgatagctggacaagtcagtaagcccttgctgtcagtgcggagtgaaatgaatgcggagttgagaggtgaggacaaggctgctacttcagacagcgagctgaatgagcccctgcttgcgcccgtggaatcaaatgacagcgaggacactcccagcaagctcttcggggccagaggaaacacagtcctaccagaaccaggaactcctgaccagcaccaggccagtcagacccatccctcctttccagttggaccacagcctcttctaacggcacagcagttagcctctgctgtggccggggtgatgccgggaggccccccagccctcaatcagcctatcctcatccccttcaacatggcgggacaactaggtggtcagcaaggcctggtcctcacactgcccaccgcgaatctcacaaacatccaagggctggtagcggcagctgcagctggaggcattatgactctgccattgcaaaatttacaagctacctcatccctgaactcccagctgcaacagctccagcaactccagctccagcagcaacagcagcagcaacaaccacctcctccaccaaccagccagcacccacagccagcctcacaggcgcccgcacagtctcagcagccgcagtcccagcccaccccgcctcaccagccaccacctgcttcacagcagttgccagctgccccagctcagctgccgcaggctactcagcctcaacagcatcaacctcattcccatccccagaaccagaaccagtcgtctccaacccagcagagctcaagcccccctcagaaacccaccccatctccaggaggacatagccttccgtcaccactcacaccgcctaaccctctacagctggttaataatcctctagcaagtcaggccgccgctgcagcagcagccatgggctccatagcaagctcacaggcctttggcaatgccctctccagccttcagggggtcacaggtcaactagttactaatgcacaaggacagattattgggaccattccactgatgcctaacccagggccatcgagtcaagcagcaagtggcactcagggccttcaagtacagcctatcacaccccagctcctaaccaatgcccagggccaaatcattgccacggtcatcggaaaccagatcttgcctgtgatcaatacccagggtattaccctgtcccccatcaagccaggccagcagcttcaccaatcttcccagacatcagttggtcaagcaggcacccaaggcaacctcctgcacctggctcatggccaagcatccacctctcaaagtccggtgcgacaggcttcctcctcctcctcttcatcctcctcttcttcagctttgagcgtgggccagttagtcagcaatcctcaaacggcagcgggtgaggtggacggggttaatctggaggagatccgagaatttgccaaagcttttaaaatccgacgcctgtcccttggcctgacacagactcaggtgggacaagccctcagtgccacagagggccctgcatacagccagtcggccatctgcagacacaccatcctgagaagccactttttcctaccacaggaagcccaagagaacactatagctagcagtctgacagccaaactgaaccctggccttttgtatcctgccaggtttgaaaagctggacatcacccctaaaagtgcccagaagattaagccggtgcttgagcggtggatggctgaggctgaggcccgccatcgagcaggtatgcagaatctcacggagtttattgggagtgagccatccaaaaagcgcaagcggcgcacctccttcacaccccaggcccttgagatcctcaatgcccactttgagaagaacacacacccctcagggcaggaaatgaccgagattgctgagaagctaaactatgaccgggaagtagttagagtttggttctgcaataagagacaagctctgaagaacacaatcaaacgtttaaagcagcacgagcccacctctgcggtccccctggaacccttagcggactctccggaagaaaactgttagacacaccgttcatgatcagaaggaagcatctcagaaactgagcattaccccaagtctccacaaaaaagaaagaaaaaagaagaaaaaagaatttaaagacacccccagtcatcatctctcttgtatgtaaaagactaaaaacaaaaactaccaagtgggcagaatggtttatacatgtctgttggttttccaaaaggaaaaaaaaaggagagagaaattttaaatttttaaacaagaaaaaataccacatgaaggagtatgtggtaggatcattcgctccccccacctgtctccctaaagccagttttttaaaagcaaaccaaataaccacttacttttttctgtacgtgatgaaaatgtgaacaccttttaaggaaaaaggaaaaaaaactaaaccaaaaaaaaaaaaaaaaaaagaacaaaagcaaaaaaaccgccaacacaaacttgtatctgttcaaagcgaatgcaagcctgccacctggaggagtgactgcaacccttcagggactaagtgctgatcactgcaaaccctatttaccaaagtcggaaacactgcaaatgctactgctcgtctactcgcctctgcgtgaagagttatgttatgagtttttacatgtgtaccaacaggaaagtggaagcccgctttctcccatctttcttgcctgatgtctgtgccaccacggcggatgctattgttgggagcattctctagggctcactgtctacaatttgcttcttagcagatgaagtagcttcctcttttctttctttctttttttgttattgtttttgttttctgaattgtgtcatttccttttttgttttatttttggcgggtggtggggtggagaaacaacctggattgtgtgccaaagccttcgtggctttctttcactatgagttgtaggtttgagagagaaaatggagttcacacttccctttcttccctattgctccatttccctttcctgtggttccggggaatcttctggaagatggcagaagtgggaagaatggtttctttcccactccaatcctgcagaaacgcaggagacaatccaggataactaagtctgtctgctgaatgactgtcaacactggcagaggctgtaactgctcacggttcacaccagagattgggatttttctcggtctactagccacatatgtggagagctgatacaaattaattctgtaatataaacatacgctgcacatatggttcaatacttaaacctgtgttatgcttctgttcaaagcaaattctctaagaagtctatagccaaagaaaagtctcaagatttcagtcagtacacacgcacacaagcacgtccatgctcattcgcctcacacacagagagagaccacaaaagatgatggtgacctagattgttaggggctgttgagtgtcctgttaacctcgtcttttctgctacttgtttcatcaaacagtgttggcagacatttggagctggggtacatctgttcttgggatatatacatggcataaaaaggtgacaggcaaattgaagcaagtggaactaggctctggcttcttgacaaagaagtttagcaacaaaggctctccaataaaggaaaaatagacaagtagcttataaaacacctcagaagagccttccccattagcatattaattcactttcaaaagagcttccccaaggcatgagccacgagatccaagaaggccacagaatgaaaggcaaagaaacccttggagcctgttaatgttttcaccctggtgagggcagagagttctatcaaagcaggtaagaaccatcaacgtagatactcatgagtagttaaaaagcatgctcgtgtactgtctagaggcaaatcatgaaagggaaaaagaaaccccacctccagttgcccagttggttacaaagaccatcttgtatcccctagcaagctctcccaagcaggggttctagtttttttttctgttggctcctttgctggtaacaaaaatgggacagtaaaatagtccctcagatgcaatcataaatcagcaatcataaaactcccaccaaggaaactaaataataattctggacatagagtcattaataacagtgtctccatgccactagtctgattctaattggaccacaaccagcccgattagtgccaacaacatcatggtagcatttcacaactgcaaagactgaagaaataccagcaacccagaaaccgaaactttattgattaaaacagattttgtattctcctaggacctgctacaaattccatcaagaaaaactccccaagaagagacgctaacaagataacataggacggatgctaaatgtttaaaatctgaaccggaagcaggcacatgaggcctgctcagttctgaggtctatgattgggagagcatagctagaatagtaaaaatataaaataaaactaatcacccagagtagaacaaaaaagaagtgaattcatcccatggttgtaaaactattcacatgcagtgatttttttatagttttataattttgtattgttttataaattatttatatagtgttgtaatgcttcttatattgattttttactgatgaattttttgctacaaggcaaaaaaaaaagatgcctgaacagattcttaggaatataaactatacttgggaacacataagccttcaggac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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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