LOCUS       NM_001286482            2317 bp    mRNA    linear   ROD 14-JAN-2025
DEFINITION  Mus musculus orthodenticle homeobox 2 (Otx2), transcript variant 2,
            mRNA.
ACCESSION   NM_001286482
VERSION     NM_001286482.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 2317)
  AUTHORS   Cho,S.H., Kim,J.H. and Kim,S.
  TITLE     Perturbed cell cycle phase-dependent positioning and nuclear
            migration of retinal progenitors along the apico-basal axis
            underlie global retinal disorganization in the LCA8-like mouse
            model
  JOURNAL   Dev Biol 517, 39-54 (2025)
   PUBMED   39284539
REFERENCE   2  (bases 1 to 2317)
  AUTHORS   Gil,Y., Ryu,J., Yang,H., Ma,Y., Nam,K.H., Jang,S.W. and Shim,S.
  TITLE     Molecular Characterization of Subdomain Specification of Cochlear
            Duct Based on Foxg1 and Gata3
  JOURNAL   Int J Mol Sci 25 (23), 12700 (2024)
   PUBMED   39684410
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2317)
  AUTHORS   Dudukcu,O., Raj,D.D.A., van de Haar,L.L., Grossouw,L.M.,
            Linders,L.E., Garritsen,O., Adolfs,Y., van Kronenburg,N.C.H.,
            Broekhoven,M.H., Kapteijns,T.H.W., Meye,F.J. and Pasterkamp,R.J.
  TITLE     Molecular diversity and migration of GABAergic neurons in the
            developing ventral midbrain
  JOURNAL   iScience 27 (11), 111239 (2024)
   PUBMED   39569362
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2317)
  AUTHORS   Johansson,P.A., Irmler,M., Acampora,D., Beckers,J., Simeone,A. and
            Gotz,M.
  TITLE     The transcription factor Otx2 regulates choroid plexus development
            and function
  JOURNAL   Development 140 (5), 1055-1066 (2013)
   PUBMED   23364326
  REMARK    GeneRIF: Otx2 acts as a master regulator of choroid plexus
            development, thereby influencing one of the principal sources of
            signaling in the developing brain, the CSF.
REFERENCE   5  (bases 1 to 2317)
  AUTHORS   Oyanagi,M., Matsuo,I., Wakabayashi,Y., Aizawa,S. and Kominami,R.
  TITLE     Mouse homeobox-containing gene, Otx2, maps to mouse chromosome 14
  JOURNAL   Mamm Genome 8 (4), 292-293 (1997)
   PUBMED   9096118
REFERENCE   6  (bases 1 to 2317)
  AUTHORS   Matsuo,I., Kuratani,S., Kimura,C., Takeda,N. and Aizawa,S.
  TITLE     Mouse Otx2 functions in the formation and patterning of rostral
            head
  JOURNAL   Genes Dev 9 (21), 2646-2658 (1995)
   PUBMED   7590242
REFERENCE   7  (bases 1 to 2317)
  AUTHORS   Acampora,D., Mazan,S., Lallemand,Y., Avantaggiato,V., Maury,M.,
            Simeone,A. and Brulet,P.
  TITLE     Forebrain and midbrain regions are deleted in Otx2-/- mutants due
            to a defective anterior neuroectoderm specification during
            gastrulation
  JOURNAL   Development 121 (10), 3279-3290 (1995)
   PUBMED   7588062
REFERENCE   8  (bases 1 to 2317)
  AUTHORS   Simeone,A., Acampora,D., Mallamaci,A., Stornaiuolo,A.,
            D'Apice,M.R., Nigro,V. and Boncinelli,E.
  TITLE     A vertebrate gene related to orthodenticle contains a homeodomain
            of the bicoid class and demarcates anterior neuroectoderm in the
            gastrulating mouse embryo
  JOURNAL   EMBO J 12 (7), 2735-2747 (1993)
   PUBMED   8101484
REFERENCE   9  (bases 1 to 2317)
  AUTHORS   Cereghini,S., Ott,M.O., Power,S. and Maury,M.
  TITLE     Expression patterns of vHNF1 and HNF1 homeoproteins in early
            postimplantation embryos suggest distinct and sequential
            developmental roles
  JOURNAL   Development 116 (3), 783-797 (1992)
   PUBMED   1363228
REFERENCE   10 (bases 1 to 2317)
  AUTHORS   Simeone,A., Acampora,D., Gulisano,M., Stornaiuolo,A. and
            Boncinelli,E.
  TITLE     Nested expression domains of four homeobox genes in developing
            rostral brain
  JOURNAL   Nature 358 (6388), 687-690 (1992)
   PUBMED   1353865
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BQ959742.1, CO424557.1,
            BC017609.1, AK053741.1, AC166574.1 and AV513527.1.
            
            Summary: This gene encodes a protein that belongs to the homeobox
            family of transcription factors. The encoded protein plays a role
            in the development and patterning of the head. This protein
            regulates development of the choroid plexuses in the brain
            affecting composition of cerebrospinal fluid in the developing
            brain and is thought to function in the development of sense organs
            in the embryo. In humans, mutations in this gene are associated
            with pituitary hormone deficiency. Alternative splicing results in
            multiple transcript variants encoding different isoforms. [provided
            by RefSeq, Nov 2013].
            
            Transcript Variant: This variant (2) uses an alternate in-frame
            splice site in the 5' coding region compared to variant 1. The
            encoded protein (isoform b) is shorter than isoform a. Variants 2,
            3 and 4 encode the same protein.
            
            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 :: BQ959742.1, SRR7345562.932974.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164138, SAMN01164142
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-75                BQ959742.1         1-75
            76-776              CO424557.1         1-701
            777-1815            BC017609.1         699-1737
            1816-2041           AK053741.1         1652-1877
            2042-2043           AC166574.1         25640-25641         c
            2044-2307           AK053741.1         1881-2144
            2308-2317           AV513527.1         123-132
FEATURES             Location/Qualifiers
     source          1..2317
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10090"
                     /chromosome="14"
                     /map="14 25.36 cM"
     gene            1..2317
                     /gene="Otx2"
                     /gene_synonym="E130306E05Rik"
                     /note="orthodenticle homeobox 2"
                     /db_xref="GeneID:18424"
                     /db_xref="MGI:MGI:97451"
     exon            1..217
                     /gene="Otx2"
                     /gene_synonym="E130306E05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            218..291
                     /gene="Otx2"
                     /gene_synonym="E130306E05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            292..507
                     /gene="Otx2"
                     /gene_synonym="E130306E05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            508..659
                     /gene="Otx2"
                     /gene_synonym="E130306E05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            660..2309
                     /gene="Otx2"
                     /gene_synonym="E130306E05Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2289..2294
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Otx2"
                     /gene_synonym="E130306E05Rik"
                     /note="hexamer: ATTAAA"
     polyA_site      2309
                     /gene="Otx2"
                     /gene_synonym="E130306E05Rik"
                     /note="major polyA site"
ORIGIN      
        1 tccccctgtt gtgtgttttt attattttcc ctctggctta gatgtgtcaa tcattctctc
       61 cctgccattg gttggagagt ttgcgtcaaa aagttgccag agaggcgctt tctcagcaaa
      121 tctccctgag agcggaacct tcctcagctc caactcagcc tccactgtta ctaaaaaata
      181 aaaatcgcta gaggagctca gtcgccacct ctactttgat agctggctat ttggaatttt
      241 gaaggataat ttgatttttt tttcttttct aacgtccaat gcggctgtaa gttccgtcac
      301 tccaaatcta cccaccaagg accctgaccc tgtccactcc aggcgaatcg agaccgtccg
      361 gctgggtccc cccaatttgg gccgactttg cgcctccaaa caaccttagc atgatgtctt
      421 atctaaagca accgccttac gcagtcaatg ggctgagtct gaccacttcg ggtatggact
      481 tgctgcatcc ctccgtgggc taccccgcca ccccccggaa acagcgaagg gagaggacga
      541 catttactag ggcacagctc gacgttctgg aagctctgtt tgccaagacc cggtacccag
      601 acatcttcat gagggaagag gtggcactga aaatcaactt gccagaatcc agggtgcagg
      661 tatggtttaa gaatcgaaga gctaagtgcc gccaacagca gcagcagcag cagaatggag
      721 gtcagaacaa agtgaggcct gccaagaaga agagctctcc agctcgggaa gtgagttcag
      781 agagtggaac aagtggccag ttcagtcccc cctctagtac ctcagtccca accattgcca
      841 gcagcagtgc tccagtgtct atctggagcc cagcgtccat ctccccactg tctgacccct
      901 tgtccacttc ctcctcctgc atgcagaggt cctatcccat gacctatact caggcttcag
      961 gttatagtca aggctatgct ggctcaactt cctactttgg gggcatggac tgtggatctt
     1021 atttgacccc tatgcatcac cagcttcctg gaccaggggc cacactcagt cccatgggta
     1081 ccaatgctgt taccagccat ctcaatcagt ccccagcttc tctttccacc cagggatatg
     1141 gagcttcaag cttgggtttt aactcaacca ctgattgctt ggattataag gaccaaactg
     1201 cctcttggaa gcttaacttc aatgctgact gcttggatta taaagatcag acgtcctcat
     1261 ggaaattcca ggttttgtga agacctgtag aagctatttt tgtgggtgat ttttaaatat
     1321 gctgggctga acattccagt tttagccagg cattggttaa aaaagttaga tggaacgatg
     1381 ctctcagact cctgatcaaa gttaccgaga ggcatagaag gaaaaaggaa ggggccttag
     1441 aagggtccat caaccagcaa cctgaaatgg acaaaccaat ctacttaaga ttctgttata
     1501 gttctagatc attggtttcc tgatttgcaa atgattgatc aaatatattc tagcgacatg
     1561 caaccaaata ccactcaaaa caaaaatcca gcaaaactga gttgtgaggg aagggaggga
     1621 aggtcatggc cttcaaagca gaggtgatcc ggtgttttag ccaatctttg gttgaatctt
     1681 aggaatggac aatgtcccag gctcattcac gtttcatgac caacaggtag ttggcactga
     1741 aaaacttttc agggctgtgt ggattgtgcg actgattgtc ctagatgcac tactttattt
     1801 aaaaaaaaaa aaaaagatac cgctcatacg gagtcaatat gtagtttaag agacaatcag
     1861 tgtgtgtctt atataaatgg tacatctgtg gtttttaatc tgtgctagac ttcaaaactg
     1921 tgatctcctg ttattgtatg caaccttgaa ctccacctcc gcaggggttc ttctgtgatt
     1981 aaataggtta taattataag caaaattcag agcaactgga tactgatcta gaaagattac
     2041 cttgggctgg aggtgagctg ccctgctgtc tctggacaag gatcgagaag aagcaaaagg
     2101 accctaattc acccgtaatt taatgttggt aagcctggca gtttaaaaaa aaaaaaaaaa
     2161 agacattggt caattgctct gaccctgatg acttttaagc tgagatcatt gtcattatgc
     2221 ttgcagatgt taactggaag ttatatatgc ataaaccctt cctggatttg gcagatatgt
     2281 ataattatat taaaatggtt ctagcacaaa aaaaaaa
//
