2024-04-25 01:29:46, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_023990 2677 bp mRNA linear ROD 31-JUL-2023 DEFINITION Rattus norvegicus SIX homeobox 3 (Six3), mRNA. ACCESSION NM_023990 XM_001059990 VERSION NM_023990.2 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 2677) AUTHORS Dai G, Li Y, Zhang M, Lu P, Zhang Y, Wang H, Shi L, Cao M, Shen R and Rui Y. TITLE The Regulation of the AMPK/mTOR Axis Mitigates Tendon Stem/Progenitor Cell Senescence and Delays Tendon Aging JOURNAL Stem Cell Rev Rep 19 (5), 1492-1506 (2023) PUBMED 36917311 REMARK GeneRIF: The Regulation of the AMPK/mTOR Axis Mitigates Tendon Stem/Progenitor Cell Senescence and Delays Tendon Aging. REFERENCE 2 (bases 1 to 2677) AUTHORS Lavado A and Oliver G. TITLE Six3 is required for ependymal cell maturation JOURNAL Development 138 (24), 5291-5300 (2011) PUBMED 22071110 REFERENCE 3 (bases 1 to 2677) AUTHORS VanDunk C, Hunter LA and Gray PA. TITLE Development, maturation, and necessity of transcription factors in the mouse suprachiasmatic nucleus JOURNAL J Neurosci 31 (17), 6457-6467 (2011) PUBMED 21525287 REFERENCE 4 (bases 1 to 2677) AUTHORS Liu W, Lagutin O, Swindell E, Jamrich M and Oliver G. TITLE Neuroretina specification in mouse embryos requires Six3-mediated suppression of Wnt8b in the anterior neural plate JOURNAL J Clin Invest 120 (10), 3568-3577 (2010) PUBMED 20890044 REFERENCE 5 (bases 1 to 2677) AUTHORS Abe Y, Oka A, Mizuguchi M, Igarashi T, Ishikawa S, Aburatani H, Yokoyama S, Asahara H, Nagao K, Yamada M and Miyashita T. TITLE EYA4, deleted in a case with middle interhemispheric variant of holoprosencephaly, interacts with SIX3 both physically and functionally JOURNAL Hum Mutat 30 (10), E946-E955 (2009) PUBMED 19606496 REFERENCE 6 (bases 1 to 2677) AUTHORS Lagutin O, Zhu CC, Furuta Y, Rowitch DH, McMahon AP and Oliver G. TITLE Six3 promotes the formation of ectopic optic vesicle-like structures in mouse embryos JOURNAL Dev Dyn 221 (3), 342-349 (2001) PUBMED 11458394 REFERENCE 7 (bases 1 to 2677) AUTHORS Lengler J, Krausz E, Tomarev S, Prescott A, Quinlan RA and Graw J. TITLE Antagonistic action of Six3 and Prox1 at the gamma-crystallin promoter JOURNAL Nucleic Acids Res 29 (2), 515-526 (2001) PUBMED 11139622 REFERENCE 8 (bases 1 to 2677) AUTHORS Ohkura N, Ohkubo T, Maruyama K, Tsukada T and Yamaguchi K. TITLE The orphan nuclear receptor NOR-1 interacts with the homeobox containing protein Six3 JOURNAL Dev Neurosci 23 (1), 17-24 (2001) PUBMED 11173923 REFERENCE 9 (bases 1 to 2677) AUTHORS Wallis DE, Roessler E, Hehr U, Nanni L, Wiltshire T, Richieri-Costa A, Gillessen-Kaesbach G, Zackai EH, Rommens J and Muenke M. TITLE Mutations in the homeodomain of the human SIX3 gene cause holoprosencephaly JOURNAL Nat Genet 22 (2), 196-198 (1999) PUBMED 10369266 REFERENCE 10 (bases 1 to 2677) AUTHORS Kawakami K, Ohto H, Takizawa T and Saito T. TITLE Identification and expression of six family genes in mouse retina JOURNAL FEBS Lett 393 (2-3), 259-263 (1996) PUBMED 8814301 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from JACYVU010000163.1. On Feb 26, 2021 this sequence version replaced NM_023990.1. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: AB030833.1, AI717283.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMD00132279, SAMD00155320 [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 1-1176 JACYVU010000163.1 9042161-9043336 c 1177-2677 JACYVU010000163.1 9039017-9040517 c FEATURES Location/Qualifiers source 1..2677 /organism="Rattus norvegicus" /mol_type="mRNA" /strain="BN" /db_xref="taxon:10116" /chromosome="6" /map="6q12" gene 1..2677 /gene="Six3" /note="SIX homeobox 3" /db_xref="GeneID:78974" /db_xref="RGD:620909" exon 1..1176 /gene="Six3" /inference="alignment:Splign:2.1.0" misc_feature 8..10 /gene="Six3" /note="upstream in-frame stop codon" CDS 356..1369 /gene="Six3" /note="sine oculis-related homeobox 3 homolog; sine oculis homeobox homolog 3" /codon_start=1 /product="homeobox protein SIX3" /protein_id="NP_076480.1" /db_xref="GeneID:78974" /db_xref="RGD:620909" /translation="
MVFRSPLDLYSSHFLLPNFADSHHCSLLLASSGGGSGAGGGGGAGGGGGGGGGNRAGGGGAGGAGGGGGGGGGGSRAPPEELSMFQLPTLNFSPEQVASVCETLEETGDIERLGRFLWSLPVAPGACEAINKHESILRARAVVAFHTGNFRDLYHILENHKFTKESHGKLQAMWLEAHYQEAEKLRGRPLGPVDKYRVRKKFPLPRTIWDGEQKTHCFKERTRSLLREWYLQDPYPNPSKKRELAQATGLTPTQVGNWFKNRRQRDRAAAAKNRLQHQAIGPSGMRSLAEPGCPTHGSAESPSTAASPTTSVSSLTERADTGTSILSVTSSDSECDV"
misc_feature 629..970 /gene="Six3" /note="Transcriptional regulator, SIX1, N-terminal SD domain; Region: SIX1_SD; pfam16878" /db_xref="CDD:435624" misc_feature 992..1138 /gene="Six3" /note="Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner; Region: homeodomain; cd00086" /db_xref="CDD:238039" misc_feature order(995..997,1004..1006,1124..1126,1133..1138) /gene="Six3" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" exon 1177..2677 /gene="Six3" /inference="alignment:Splign:2.1.0" ORIGIN
gaatcgctgaatcttgactcggcggtggttggctctcgctctcctctctctccctctccctctccctctccctctctctgcctcgggttctctctctgcgcgcgcgcaccgggccgctctccttcctccctctctatgtggctgcgcgggtgtgtgtgtatgtggatgtgtgtggggtgtgggtgtcccttacgtccttcctcctccccctccttctccttctgctcccccctcctttccatctcctcctcccccctcttctctccctcctcctggtcctcatcgcccctctcctcctcttcctcccctctctcttcctctccctgaattttctcctctcctctcaggtcagtccatggtattccgctcccccctagacctctattcctcccacttcttgttgccaaacttcgccgattctcaccactgctccctacttctggcgagtagcggcggcgggagcggtgcgggcggcggcggcggcgcgggaggaggcggcggcggcggcggcgggaaccgtgcgggaggcggcggtgctggcggagcaggcggcggcggcggcggcggcggcggcggctccagggcccccccggaagagttgtccatgttccagctgcccaccctcaacttctcgccggagcaggtggccagcgtctgcgagacgctggaggagacgggcgacatcgagcggctgggccgcttcctctggtcgctgcccgtggcccctggggcgtgcgaggccatcaacaaacacgagtcgatcctgcgcgcgcgcgccgtcgtcgccttccacaccggcaacttccgagacctgtaccacatcctggagaatcacaagttcaccaaggagtctcacggcaagctgcaggccatgtggctcgaggcgcactaccaggaggccgagaagctgcgcggccgccctctcggcccggtggacaagtaccgcgtgcgcaagaagttccctctgccgcgcaccatctgggatggggagcagaagacccattgcttcaaggagcggactcggagcctgctgcgggaatggtacctgcaggatccctaccccaaccccagcaagaaacgagaactggcgcaggccaccggcctcacccccacacaagtaggcaactggtttaagaaccggcgacagcgcgaccgcgcagcggcggccaagaacaggctccagcaccaggccatcgggccgagcgggatgcgctcgctggccgagcccggctgccccacgcacggctcagcagagtcaccgtccacggcagccagtccgaccaccagtgtgtccagcctgacggagcgcgcggacactggcacttctatcctctcggtaacctccagcgactcggaatgtgatgtatgatagccaaggccgccctcctcctccttcccctcctccccctccaccttcccctcctcctcctagccctgctcctcttcctcctcttctactccatccctagaacaaaccgaaatcaggatacacagccacacacacacacacacacacacacacacaagtccatacacactcccaccccagccaaaaatatatttaaaaaaaacaagaaaaataaattaacctcaaatcatcaacaaccccccaccacctaccaccaccacggccaccccaaaggaccgcgacgccaacagacagtcacaaacgctgatgttgcgggcagaaagcataaaagaggtgacaattgtatactttctaggacaagcacggcttctccttttggttcccacggacccggcaccccacctgcatgacgatttatttgtatctgggaaaatattctctctagtttaaaatgatttaaagagtcgactatacaaaaaaacgccaccatcgccgccgcgacaagacgacaaaagcaaacagacaaaaagaaaaaaaatctgacatctccgttctgaatttgttttttttttttaaaggaaagaaagaaaggaaaaaaaaaactcctcgagagaaatagcaaatgtttcttccttctgttgctcttttctcctttagccctatccatccatctatctatctatctatctatctatctatctatctatctatctatctatctctgttttttaagtccaagtattggtcaaacaagatgcaatcctctgtttttgttcagccgacaatcattttcttcgtaagcacctttttctctccactctgtcactgcctgtgtgggtactggttataaatgtggaaaaagaatagttatgactgtaacagatttttatttttatttcaaaattttatatgaattatgtatatcttaatgatcggtcattttcccagtttgtaatatatgtgtagaaattgcttgtatatgatacctgcttttctcctctcccttctctctctctctcctccctccttccctgcccactcacctctttcctttggggattctcggcgtcgacttggcagtcgaggcttgacgaggtggccagggttagagcgagagagggaccctgtcgctagcaaaagcagagagtgagaccgtagtattcttatgcaaaagctattcaagttttcctagccgctttggaggcccccttcactcccgtagggcgcttttactgttatcttaactgcgtgtttatctatatgtaaaaactttctaaagcaaatacagtattctccattttcttatga
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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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