LOCUS       NM_013109               2839 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Rattus norvegicus orthodenticle homeobox 1 (Otx1), mRNA.
ACCESSION   NM_013109 XM_039091639
VERSION     NM_013109.3
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 2839)
  AUTHORS   Zhu,J., Pan,E., Pang,L., Zhou,X., Che,Y. and Liu,Z.
  TITLE     MiR-497-5p ameliorates the oxyhemoglobin-induced subarachnoid
            hemorrhage injury in vitro by targeting orthodenticle homeobox
            protein 1 (Otx1) to activate the Nrf2/HO-1 pathway
  JOURNAL   Mol Genet Genomics 299 (1), 45 (2024)
   PUBMED   38635011
  REMARK    GeneRIF: MiR-497-5p ameliorates the oxyhemoglobin-induced
            subarachnoid hemorrhage injury in vitro by targeting orthodenticle
            homeobox protein 1 (Otx1) to activate the Nrf2/HO-1 pathway.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2839)
  AUTHORS   Sakurai,Y., Kurokawa,D., Kiyonari,H., Kajikawa,E., Suda,Y. and
            Aizawa,S.
  TITLE     Otx2 and Otx1 protect diencephalon and mesencephalon from
            caudalization into metencephalon during early brain regionalization
  JOURNAL   Dev Biol 347 (2), 392-403 (2010)
   PUBMED   20816794
REFERENCE   3  (bases 1 to 2839)
  AUTHORS   Esumi,N., Kachi,S., Hackler,L. Jr., Masuda,T., Yang,Z.,
            Campochiaro,P.A. and Zack,D.J.
  TITLE     BEST1 expression in the retinal pigment epithelium is modulated by
            OTX family members
  JOURNAL   Hum Mol Genet 18 (1), 128-141 (2009)
   PUBMED   18849347
REFERENCE   4  (bases 1 to 2839)
  AUTHORS   Kimura,J., Suda,Y., Kurokawa,D., Hossain,Z.M., Nakamura,M.,
            Takahashi,M., Hara,A. and Aizawa,S.
  TITLE     Emx2 and Pax6 function in cooperation with Otx2 and Otx1 to develop
            caudal forebrain primordium that includes future archipallium
  JOURNAL   J Neurosci 25 (21), 5097-5108 (2005)
   PUBMED   15917450
REFERENCE   5  (bases 1 to 2839)
  AUTHORS   Kurokawa,D., Kiyonari,H., Nakayama,R., Kimura-Yoshida,C., Matsuo,I.
            and Aizawa,S.
  TITLE     Regulation of Otx2 expression and its functions in mouse forebrain
            and midbrain
  JOURNAL   Development 131 (14), 3319-3331 (2004)
   PUBMED   15201224
REFERENCE   6  (bases 1 to 2839)
  AUTHORS   Puelles,E., Annino,A., Tuorto,F., Usiello,A., Acampora,D.,
            Czerny,T., Brodski,C., Ang,S.L., Wurst,W. and Simeone,A.
  TITLE     Otx2 regulates the extent, identity and fate of neuronal progenitor
            domains in the ventral midbrain
  JOURNAL   Development 131 (9), 2037-2048 (2004)
   PUBMED   15105370
REFERENCE   7  (bases 1 to 2839)
  AUTHORS   Zhang,Y.A., Okada,A., Lew,C.H. and McConnell,S.K.
  TITLE     Regulated nuclear trafficking of the homeodomain protein otx1 in
            cortical neurons
  JOURNAL   Mol Cell Neurosci 19 (3), 430-446 (2002)
   PUBMED   11906214
  REMARK    GeneRIF: ventricular cells actively sequester Otx1 in the
            cytoplasm, either by preventing nuclear import or by promoting a
            balance of export over import signals.
REFERENCE   8  (bases 1 to 2839)
  AUTHORS   Morsli,H., Tuorto,F., Choo,D., Postiglione,M.P., Simeone,A. and
            Wu,D.K.
  TITLE     Otx1 and Otx2 activities are required for the normal development of
            the mouse inner ear
  JOURNAL   Development 126 (11), 2335-2343 (1999)
   PUBMED   10225993
REFERENCE   9  (bases 1 to 2839)
  AUTHORS   Robel,L., Ding,M., James,A.J., Lin,X., Simeone,A., Leckman,J.F. and
            Vaccarino,F.M.
  TITLE     Fibroblast growth factor 2 increases Otx2 expression in precursor
            cells from mammalian telencephalon
  JOURNAL   J Neurosci 15 (12), 7879-7891 (1995)
   PUBMED   8613727
REFERENCE   10 (bases 1 to 2839)
  AUTHORS   Frantz,G.D., Weimann,J.M., Levin,M.E. and McConnell,S.K.
  TITLE     Otx1 and Otx2 define layers and regions in developing cerebral
            cortex and cerebellum
  JOURNAL   J Neurosci 14 (10), 5725-5740 (1994)
   PUBMED   7931541
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000014.1.
            
            On or before Mar 23, 2023 this sequence version replaced
            XM_039091639.1, NM_013109.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: FQ212299.1, SRR26360194.165517.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760393 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on manual assertion, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-143               JAXUCZ010000014.1  100290279-100290421 c
            144-211             JAXUCZ010000014.1  100289849-100289916 c
            212-417             JAXUCZ010000014.1  100288064-100288269 c
            418-569             JAXUCZ010000014.1  100287026-100287177 c
            570-2839            JAXUCZ010000014.1  100283406-100285675 c
FEATURES             Location/Qualifiers
     source          1..2839
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="14"
                     /map="14q22"
     gene            1..2839
                     /gene="Otx1"
                     /gene_synonym="OTX1X"
                     /note="orthodenticle homeobox 1"
                     /db_xref="GeneID:25646"
                     /db_xref="RGD:3237"
     exon            1..143
                     /gene="Otx1"
                     /gene_synonym="OTX1X"
                     /inference="alignment:Splign:2.1.0"
     exon            144..211
                     /gene="Otx1"
                     /gene_synonym="OTX1X"
                     /inference="alignment:Splign:2.1.0"
     exon            212..417
                     /gene="Otx1"
                     /gene_synonym="OTX1X"
                     /inference="alignment:Splign:2.1.0"
     CDS             321..1388
                     /gene="Otx1"
                     /gene_synonym="OTX1X"
                     /note="homeobox protein OTX1-like"
                     /codon_start=1
                     /product="homeobox protein OTX1"
                     /protein_id="NP_037241.2"
                     /db_xref="GeneID:25646"
                     /db_xref="RGD:3237"
                     /translation="MMSYLKQPPYGMNGLGLAGPAMDLLHPSVGYPATPRKQRRERTT
                     FTRSQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQQSGNG
                     TKSRPVKKKSSPVRESSGSESSGQFTPPAVSSSASSSSSASSASANPAAAAAAGLGGN
                     PVAAASSLSTPTASSIWSPASISPGSAPASVSVPEPLGAPSNASCMQRSVAAGAATAA
                     ASYPMSYGQGGSYGQGYPAPSSSYFGGVDCSSYLAPMHSHHHPHQLSPMAPSSMAGHH
                     HHHPHAHHPLSQSSGHHHHHHHHHHHQGYGGSGLAFNSADCLDYKEPAAAAASSAWKL
                     NFNSPDCLDYKDQASWRFQVL"
     exon            418..569
                     /gene="Otx1"
                     /gene_synonym="OTX1X"
                     /inference="alignment:Splign:2.1.0"
     exon            570..2839
                     /gene="Otx1"
                     /gene_synonym="OTX1X"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ggccccctat tggcggccgg gccccgttac gcactcgcct cgcgttcaca tactcgggga
       61 gggcagtaga aaggtgatca atcttcatca ggctacattt ccaatcacct aaacaaccga
      121 gcaagacaag ccactccgac aaggttggct gcccgcgggt ctcggtgagg gcgcgaggta
      181 gatggtgaag agccgcggca gccgagggca ggccaggccc caagaagcaa cagcttgaag
      241 gacgtcgcag tgggagccct gaactgctcc tggcctcagg ccccctggat ccgtcggggc
      301 gcctccaccc ggctgttagc atgatgtctt acctcaaaca acccccatac ggcatgaacg
      361 ggctgggcct agctggccct gccatggacc tcctgcaccc ttccgtgggc taccctgcca
      421 ccccgcggaa gcagcgacgg gagcgcacca ccttcacgcg ctcacagctg gacgtgctcg
      481 aggcgctgtt cgcaaagact cgctacccag acatcttcat gcgcgaggag gtggctctca
      541 agatcaacct gcccgagtcc agagtccagg tttggttcaa gaaccgccga gccaagtgcc
      601 gccagcagca gcagagcggg aatggaacga aaagccggcc ggtcaagaag aagtcgtctc
      661 cggtgcgcga gagctcgggt tccgagagca gcggccagtt cacgccgccc gccgtatcta
      721 gctctgcgtc ttcgtctagc tcagcgtcca gtgcctccgc taacccggcg gctgctgcgg
      781 ccgcgggcct gggtgggaac ccggtggcag ccgcgtcctc tctgagcacg cctactgctt
      841 cgtccatctg gagcccggcc tccatctctc ccggctcagc gccggcatcc gtatcagtgc
      901 cagagccatt aggcgctccg agcaacgcct catgcatgca gcgctcggta gccgcaggtg
      961 cggccactgc cgcggcctcc taccctatgt cctatggcca gggcggaagc tatggccagg
     1021 gctaccccgc gccttcctct tcttactttg gcggtgtaga ctgcagctcc taccttgcgc
     1081 ccatgcactc tcatcaccac ccgcaccagc ttagccccat ggcaccctcc tccatggctg
     1141 gccaccacca ccaccacccg cacgcgcacc acccactgag ccaatcttca ggccaccacc
     1201 accaccacca tcaccaccac caccaccaag gttatggagg ctctgggctc gccttcaact
     1261 ctgccgactg cttggattac aaggagcccg ccgccgccgc tgcttcctct gcctggaaac
     1321 tcaacttcaa ctctcccgac tgtctggact ataaggacca agcctcatgg cggttccagg
     1381 tcttgtgagc ccaggaggga aaggaagtgg agaagaaacg caactacctt cgccctccgt
     1441 ggtccctatc atgttgctgc tgctgctgct gctgctgctg ctgctgctgc tgctgctgct
     1501 gctgctgcac cgcccgcctt tgccttggct tttccaaaac ttaattttca ctccccaaaa
     1561 gatgttcatt gcctgcactg ccgctcccgt ctgtgctcca cttgctcggg ggtggagggt
     1621 gcagcccctt ctcccccttg gacgtggggc ccggtgctcc tacttggccc tcagtttctt
     1681 catgggatag cagtgtgctc cccctctcca ctcgtgtgtc accccctcaa gtctctctgg
     1741 acagcttgta tgcacttgga gccttctgag gctctcctct ctgaccctct ctgttttgag
     1801 ctcaacagtt ttatttattc tttctggaca ctgaagtcac taactggcga atatctaccg
     1861 ttcggagtgc gcttgtacac atacctccaa ctcaacccct ccaccgtttc tagcagactg
     1921 tcgccgcttc agctgatcca gctccccacc ggcaggccca agcttccagc atttccgtct
     1981 ccccaatggt gagcgctggg ccaggcttgc gggaggagtg tgccccagcc tccttccctg
     2041 ccctgcgctg gactgagtca agcttccgcc gcagcgggaa tgctgtacat agtcaggtcc
     2101 gttccaagga ccacttaaag tttttagttg ctgttggttg aactgagctt ctctcttgtt
     2161 ttagcgtcca agaaacagaa ctttaaaata tatacatcac atatatatac acatattata
     2221 tataacagaa gcaaaaaata ttcccccttt gttcccgttc ctctctttct caaacgatag
     2281 cggttcttat ttttcagttg tttccaagct gtcctgccct cttcacacct ccctttgtgt
     2341 atttattaaa gaaacccgct tggttttagg aagctgggct ctggaggatc ggaagtgaag
     2401 aaaacagcta agtcagggta caggggtcgg gctaggctgg gcagggcgca agactgaccc
     2461 ttcgccagtc taagcacaat atcaaagcgt cagcttagaa acaaacaaac aaaaattggt
     2521 gaaattacaa cattgtggga agcaaaccga gcccgagttc caggtccaat ttcctgtatg
     2581 tctctcttta aaacacccct gtctgttccg tgagttttta gtgaaccttc attctccgaa
     2641 atctgcggag aatacctgtg tatctatcag ttttggtttt ggccgcttgg tccagtaggt
     2701 gggaaagtaa tttgtaaatt tgatttgtcc gatgtgaaga tcacaaatta cttgttgaga
     2761 tgtaaggcag tccgtctcct cttcctcttt atctacatta tttcccgaaa ataaaagcaa
     2821 attaatgaat ggctcgtca
//
