LOCUS       NM_001109546            2814 bp    mRNA    linear   ROD 21-MAR-2023
DEFINITION  Rattus norvegicus visual system homeobox 1 (Vsx1), mRNA.
ACCESSION   NM_001109546 XM_001071714
VERSION     NM_001109546.1
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 2814)
  AUTHORS   De Bonis P, Laborante A, Pizzicoli C, Stallone R, Barbano R, Longo
            C, Mazzilli E, Zelante L and Bisceglia L.
  TITLE     Mutational screening of VSX1, SPARC, SOD1, LOX, and TIMP3 in
            keratoconus
  JOURNAL   Mol Vis 17, 2482-2494 (2011)
   PUBMED   21976959
REFERENCE   2  (bases 1 to 2814)
  AUTHORS   Kerschensteiner D, Liu H, Cheng CW, Demas J, Cheng SH, Hui CC, Chow
            RL and Wong RO.
  TITLE     Genetic control of circuit function: Vsx1 and Irx5 transcription
            factors regulate contrast adaptation in the mouse retina
  JOURNAL   J Neurosci 28 (10), 2342-2352 (2008)
   PUBMED   18322081
REFERENCE   3  (bases 1 to 2814)
  AUTHORS   Tang YG, Picornell Y, Su X, Li X, Yang H and Rabinowitz YS.
  TITLE     Three VSX1 gene mutations, L159M, R166W, and H244R, are not
            associated with keratoconus
  JOURNAL   Cornea 27 (2), 189-192 (2008)
   PUBMED   18216574
REFERENCE   4  (bases 1 to 2814)
  AUTHORS   Mok JW, Baek SJ and Joo CK.
  TITLE     VSX1 gene variants are associated with keratoconus in unrelated
            Korean patients
  JOURNAL   J Hum Genet 53 (9), 842-849 (2008)
   PUBMED   18626569
REFERENCE   5  (bases 1 to 2814)
  AUTHORS   Liskova P, Ebenezer ND, Hysi PG, Gwilliam R, El-Ashry MF, Moodaley
            LC, Hau S, Twa M, Tuft SJ and Bhatacharya SS.
  TITLE     Molecular analysis of the VSX1 gene in familial keratoconus
  JOURNAL   Mol Vis 13, 1887-1891 (2007)
   PUBMED   17960127
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2814)
  AUTHORS   Mintz-Hittner HA, Semina EV, Frishman LJ, Prager TC and Murray JC.
  TITLE     VSX1 (RINX) mutation with craniofacial anomalies, empty sella,
            corneal endothelial changes, and abnormal retinal and auditory
            bipolar cells
  JOURNAL   Ophthalmology 111 (4), 828-836 (2004)
   PUBMED   15051220
REFERENCE   7  (bases 1 to 2814)
  AUTHORS   Ohtoshi A, Wang SW, Maeda H, Saszik SM, Frishman LJ, Klein WH and
            Behringer RR.
  TITLE     Regulation of retinal cone bipolar cell differentiation and
            photopic vision by the CVC homeobox gene Vsx1
  JOURNAL   Curr Biol 14 (6), 530-536 (2004)
   PUBMED   15043821
REFERENCE   8  (bases 1 to 2814)
  AUTHORS   Chow RL, Volgyi B, Szilard RK, Ng D, McKerlie C, Bloomfield SA,
            Birch DG and McInnes RR.
  TITLE     Control of late off-center cone bipolar cell differentiation and
            visual signaling by the homeobox gene Vsx1
  JOURNAL   Proc Natl Acad Sci U S A 101 (6), 1754-1759 (2004)
   PUBMED   14745032
REFERENCE   9  (bases 1 to 2814)
  AUTHORS   Heon E, Greenberg A, Kopp KK, Rootman D, Vincent AL, Billingsley G,
            Priston M, Dorval KM, Chow RL, McInnes RR, Heathcote G, Westall C,
            Sutphin JE, Semina E, Bremner R and Stone EM.
  TITLE     VSX1: a gene for posterior polymorphous dystrophy and keratoconus
  JOURNAL   Hum Mol Genet 11 (9), 1029-1036 (2002)
   PUBMED   11978762
REFERENCE   10 (bases 1 to 2814)
  AUTHORS   Chow RL, Snow B, Novak J, Looser J, Freund C, Vidgen D, Ploder L
            and McInnes RR.
  TITLE     Vsx1, a rapidly evolving paired-like homeobox gene expressed in
            cone bipolar cells
  JOURNAL   Mech Dev 109 (2), 315-322 (2001)
   PUBMED   11731243
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from CH474050.2.
            
            On Oct 4, 2007 this sequence version replaced XM_001071714.1.
            
            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##
            RNAseq introns :: single sample supports all introns SAMN13663594,
                              SAMN13663599 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..2814
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10116"
                     /chromosome="3"
                     /map="3q41"
     gene            1..2814
                     /gene="Vsx1"
                     /note="visual system homeobox 1"
                     /db_xref="GeneID:689704"
                     /db_xref="RGD:1305667"
     exon            1..612
                     /gene="Vsx1"
                     /inference="alignment:Splign:2.1.0"
     CDS             177..1286
                     /gene="Vsx1"
                     /note="visual system homeobox 1 homolog"
                     /codon_start=1
                     /product="visual system homeobox 1"
                     /protein_id="NP_001103016.1"
                     /db_xref="GeneID:689704"
                     /db_xref="RGD:1305667"
                     /translation="MTGRDGLLDGRSRSRALAPGCPPTGSRLRSFAINDLLGLEADLP
                     TPAEPGLRSNCEAPAEATGPGPGPGLCGTCPARGALPLGLGLLCGFGAQPPSATAARA
                     RCLLLADLRLLPPAGPEPAVAQSPVHPPPALGSQQRSENISTSDGDSPSEEKNDPKMS
                     LTLGKRKKRRHRTVFTAHQLEELEKAFGEAHYPDVYAREMLAVKTELPEDRIQVWFQN
                     RRAKWRKREKRWGGSSVMAEYGLYGAMVRHCIPLPDSVLNSADSLQGSCAPWLLGMHK
                     KSTEMRKPESEEKLAGLWELDHLRKGAKKDEDGPERGPGKASLNPEGSLEDVAIDLSS
                     SSRQETKKMPSGSSTQGCTHAPGPQVLQPPQVGAS"
     exon            613..691
                     /gene="Vsx1"
                     /inference="alignment:Splign:2.1.0"
     exon            692..815
                     /gene="Vsx1"
                     /inference="alignment:Splign:2.1.0"
     exon            816..993
                     /gene="Vsx1"
                     /inference="alignment:Splign:2.1.0"
     exon            994..2814
                     /gene="Vsx1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 aacctcgctg gtgggcgctt gaatgcgtct gctccctgct gattggcgcc ttcaaggccg
       61 tctaggtctc acggacagct tctccagcat aaaaggggtc gcctgaactg gcatcctccg
      121 cacaggtggc cagaaaggac tcaattcccc gctgctggcc tagagggctg agaagcatga
      181 cgggccggga tgggcttttg gatgggcgtt ccaggagtag agccctggcg ccaggctgtc
      241 cccccaccgg ctctcgcctt cgaagcttcg ccatcaacga cctgctggga ttggaggcag
      301 acctgccgac tccagcggag cctgggctaa gatccaactg tgaagctcca gcggaggcaa
      361 cagggccagg accggggccg ggactctgcg gcacctgccc tgctcgcgga gctctcccgc
      421 tgggcctggg cctcctctgc ggcttcgggg cacagccccc ttccgcgacc gccgctcgcg
      481 cacgctgcct actgctcgcc gatctgcggc ttctgccgcc tgcaggaccc gagcctgctg
      541 tcgcccagag cccggtccac ccgccgcctg cgctcggcag ccagcagcgc agtgagaaca
      601 tctccacgtc ggatggggac agtccatctg aagaaaagaa tgacccgaag atgtccctta
      661 ccctgggcaa gaggaagaag cggagacaca ggacggtttt cactgcccat caactagaag
      721 aactggagaa ggcgtttggc gaggcccact accctgatgt gtatgctcgg gagatgctgg
      781 ctgtgaaaac agagctcccg gaagaccgga tacaggtctg gttccagaac cggagggcca
      841 agtggcggaa gcgagagaag cgctggggtg gcagcagtgt gatggctgag tacgggctct
      901 acggagccat ggtgcgtcac tgcattccgt tgccggactc cgtgctcaac tctgcagaca
      961 gcctgcaggg ctcctgtgca ccctggcttc tggggatgca taaaaagtct acagagatga
     1021 ggaaacctga aagtgaagag aagttggcag gactctggga gttggaccat ctcagaaagg
     1081 gtgctaagaa ggatgaggat ggacctgaga ggggaccagg caaagcgagc ctgaaccctg
     1141 agggcagctt ggaagatgtg gccattgacc tgtccagctc ttccaggcag gagactaaga
     1201 aaatgccctc agggtccagt actcagggat gtacccacgc cccagggccg caggtgctcc
     1261 agcccccaca ggtgggagcc tcatgagact cacagattgc gcccccaaaa gttggaaaaa
     1321 acgtgtattt ctcaggagta cttttcagga ggcaggtcca agacaaacac cttcagtttg
     1381 attttcttcc tgaaacgatc tggataaaaa ggcaacacta caacgctgaa tatataacga
     1441 cttagggaaa gtcccactta attctagagt ggagaacatc catgcaacct ctcaagctag
     1501 tcaacttggt tttctttcat ttttcttttg tagaatttgg acatggaaga tttgaagttc
     1561 aacgataatt ttagggatag agtatgatga ggctcagtta atagcacacg tgaaggcctg
     1621 gatttaatac ccagcaccgt ggaaaacaga tgtagtagct cacacctgta atcccagcac
     1681 tcagggggtg gagacaagag gtccgacatt caagagcatc ccagtttggg ggggggagat
     1741 tattactaca tggcattaat taaaatgtag ttgaatcatt aaatggctgg tctgacctcc
     1801 tcacactaag ttagaatagt tgctttgttg aaacagggtc ttgctgtgca gcccaggcta
     1861 gcctcatttt catgatctcc tgcttcagcc tccccagtgc tgggttacag gtgtgaaaat
     1921 aattgtttta cattcctagg agaagcctct aaacagagga atgaatgaat gaatgaatga
     1981 atgaatgaac gctatactac agttccttga gctgggtcta gaacatcccc atctttgtga
     2041 taggtggtaa ttttgtgttc tcagtcactt gataggcctt gaatattcaa tgtataaaca
     2101 gcaaagaaag ccatatgcct ctcctcctct gaagtcaccc ggagttgtgt ttaagcaatt
     2161 gttaaatgtc tgcagactgt ctgaaggtcg gacccaactt attgtttttt gttttttgtt
     2221 tttttgtttt gttttttttt tttgagttta tgtttgaaag cactttagtg aattggattc
     2281 atgaatgttt tctttccagt atttcctttc ccatttattt attatttaaa aaataaatgt
     2341 gtgttgtgtc tggcgcaaag ctacttactg gccgctcaat agactctccc ttcatgtccc
     2401 ttttaagtct ggaaacgtgc agagcacgat gtctttcagg ctgcaggact cagcgcaggg
     2461 tctatgtagt gtctggagca ggagccctgg ctgagccagc ttttggagct cagagtctga
     2521 agaagcgttg tcagttttat gcagcttcct ctgcaggtta tctcaggaac acatcaggtt
     2581 gggctgcccc cacctccacc cccagtctct ctagataaga aaatgggcag tctcttcctt
     2641 tagtctgttt ttatcccatg ctagttctgt agtgttacac tctatattag tgaagtatta
     2701 accctgtgag atgatggcga aatgttacta agggagagaa acccttgcgg ggaaagatac
     2761 aaggagaaat aaagatgttt aaagtacact gaaaatgaaa taaataacat tcga
//
