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2021-10-29 02:58:09, GGRNA.v2 : RefSeq release 207 (Jul, 2021)

LOCUS       NM_001107961            4096 bp    mRNA    linear   ROD 10-FEB-2021
DEFINITION  Rattus norvegicus diencephalon/mesencephalon homeobox 1 (Dmbx1),
            mRNA.
ACCESSION   NM_001107961 XM_001070471 XM_233404
VERSION     NM_001107961.3
KEYWORDS    RefSeq.
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 4096)
  AUTHORS   Fujimoto W, Shiuchi T, Miki T, Minokoshi Y, Takahashi Y, Takeuchi
            A, Kimura K, Saito M, Iwanaga T and Seino S.
  TITLE     Dmbx1 is essential in agouti-related protein action
  JOURNAL   Proc Natl Acad Sci U S A 104 (39), 15514-15519 (2007)
   PUBMED   17873059
REFERENCE   2  (bases 1 to 4096)
  AUTHORS   Kimura K, Miki T, Shibasaki T, Zhang Y, Ogawa M, Saisho H, Okuno M,
            Iwanaga T and Seino S.
  TITLE     Functional analysis of transcriptional repressor Otx3/Dmbx1
  JOURNAL   FEBS Lett 579 (13), 2926-2932 (2005)
   PUBMED   15890343
REFERENCE   3  (bases 1 to 4096)
  AUTHORS   Ohtoshi A and Behringer RR.
  TITLE     Neonatal lethality, dwarfism, and abnormal brain development in
            Dmbx1 mutant mice
  JOURNAL   Mol Cell Biol 24 (17), 7548-7558 (2004)
   PUBMED   15314164
REFERENCE   4  (bases 1 to 4096)
  AUTHORS   Zhang Y, Miki T, Iwanaga T, Koseki Y, Okuno M, Sunaga Y, Ozaki N,
            Yano H, Koseki H and Seino S.
  TITLE     Identification, tissue expression, and functional characterization
            of Otx3, a novel member of the Otx family
  JOURNAL   J Biol Chem 277 (31), 28065-28069 (2002)
   PUBMED   12055180
COMMENT     INFERRED REFSEQ: This record is predicted by genome sequence
            analysis and is not yet supported by experimental evidence. The
            reference sequence was derived from JACYVU010000162.1.
            On Feb 10, 2021 this sequence version replaced NM_001107961.2.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence based on alignments of orthologous transcripts.
            
            ##Evidence-Data-START##
            RNAseq introns :: mixed/partial sample support SAMEA5760383,
                              SAMN12840130 [ECO:0000350]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-166               JACYVU010000162.1  43952174-43952339   c
            167-345             JACYVU010000162.1  43948789-43948967   c
            346-688             JACYVU010000162.1  43948236-43948578   c
            689-4096            JACYVU010000162.1  43943520-43946927   c
FEATURES             Location/Qualifiers
     source          1..4096
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="5"
                     /map="5q35"
     gene            1..4096
                     /gene="Dmbx1"
                     /gene_synonym="Otx3"
                     /note="diencephalon/mesencephalon homeobox 1"
                     /db_xref="GeneID:313512"
                     /db_xref="RGD:1308265"
     exon            1..166
                     /gene="Dmbx1"
                     /gene_synonym="Otx3"
                     /inference="alignment:Splign:2.1.0"
     CDS             13..1143
                     /gene="Dmbx1"
                     /gene_synonym="Otx3"
                     /note="orthodenticle homolog 3"
                     /codon_start=1
                     /product="diencephalon/mesencephalon homeobox protein 1"
                     /protein_id="NP_001101431.1"
                     /db_xref="GeneID:313512"
                     /db_xref="RGD:1308265"
                     /translation="
MQHYGVNGYSLHAMNSLSAMYNLHQQAAQQAQHAPDYRPSVHALTLAERLADIILEARYGSQHRKQRRSRTAFTAQQLEALEKTFQKTHYPDVVMRERLAMCTNLPEARVQVWFKNRRAKFRKKQRSLQKEQLQKQKEAEGSHGEGKMETPASNTQLEAEQPPSLPSGDPPAELQLSLSEQSASESAPEDQLDREEDSRAEEPKAEKSPGSESKVLGCKRASPKADSPGSLAITPAAPAGSLLGPSHSYSSSPLSLFRLQEQFRQHMAATNNLVHYSSFEVGGPAPAAAAAAAAAVPYLGVNMAPLSSLHCQSYYQSLSAAAAAHQGVWGTPLLPAPPTGLAPASAALNSKTTSIENLRLRAKQHAASLGLDTLPN"
     misc_feature    order(211..225,229..231,280..282,298..300,337..339,
                     343..348,355..360,364..372,376..381)
                     /gene="Dmbx1"
                     /gene_synonym="Otx3"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    217..378
                     /gene="Dmbx1"
                     /gene_synonym="Otx3"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:278475"
     misc_feature    order(217..219,226..228,346..348,355..360,367..369)
                     /gene="Dmbx1"
                     /gene_synonym="Otx3"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    <379..729
                     /gene="Dmbx1"
                     /gene_synonym="Otx3"
                     /note="Brain acid soluble protein 1 (BASP1 protein);
                     Region: BASP1; pfam05466"
                     /db_xref="CDD:283191"
     exon            167..345
                     /gene="Dmbx1"
                     /gene_synonym="Otx3"
                     /inference="alignment:Splign:2.1.0"
     exon            346..688
                     /gene="Dmbx1"
                     /gene_synonym="Otx3"
                     /inference="alignment:Splign:2.1.0"
     exon            689..4096
                     /gene="Dmbx1"
                     /gene_synonym="Otx3"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
gcggatgccgctatgcagcactatggggtgaatggctactccctgcatgctatgaactccctcagtgccatgtacaacctgcatcagcaggcggcccagcaggcccagcatgcccctgactaccggccatcagtgcatgcgcttacattggctgagcgcctagctgacatcatcttggaggcccgctatggctcccagcaccgtaaacaacgtcgtagtcgcacggcattcacagcccagcagcttgaggccctggagaagaccttccagaagactcattacccagacgtggtgatgcgtgagaggctggccatgtgcaccaatcttcccgaggcccgcgtgcaggtgtggttcaagaaccgcagagccaagttccgaaagaagcagcgtagcctgcagaaagagcagctccagaagcagaaggaggccgagggctcccacggggaaggcaagatggagactccagcctcaaacacacagctggaagcagagcagcctcccagtctccccagtggtgacccccctgctgaacttcagctgagcctgtccgagcagtcagccagtgaatccgccccggaagaccagctggaccgcgaggaggactcccgggccgaggagcccaaggctgaaaagagtcctggatctgagagcaaggtgctggggtgcaagagggccagccctaaggcagattccccaggcagcctggccataacgcctgcagccccagcgggcagcctccttggtccttcccactcctactcctcgtccccactcagcctcttccgtctacaggagcagttccgccagcacatggcggccaccaacaacctggtgcactactcatcttttgaagtgggcggtcccgcacctgctgcggctgcagctgccgccgccgcggtgccctacctaggggtcaacatggccccactgagctccctacactgtcagtcctattaccaatccctgtcagcagctgctgctgcccaccagggtgtgtgggggaccccattgctgccggcgccccccacaggcctggcacctgcctcagctgccctgaacagtaaaaccacgagcattgaaaaccttcgcttgcgggccaagcagcacgctgcctccctgggactcgatacactccccaattgactgcctggcttccaacccaaccatggtcttaggtgttcccctatctcggtcccatggttattcccagaaggctctccgagttctccaagaactaacttcgagagcccagggatgctggggcctggagtccttccactttgtctcccttcttcagagtcccaaccccaagtgaatcccacacaccctctgcatggccctgcttggaccccatggaggtcaaatggggaggaggtgagcaactggcctcccctccccggtattgcctcctcccctgctccctcactagtaagttgatgtgtggaatgtgatataaatataaatatataaaactatattttcaggcactgcctgccccaggccccctttccctgttctcctcacatctcactgatacccttgcctctgagattctctccagcagttgttctctctctctctctctctctctctctctctctctctctctctctctctctctctctctctctctctctctcctctctctctctcctctctttttcttcctcctcctcttgatttctcccacccccctgcagccccattgcctctgtctacatccctgtcccactacctacctggatctaactgctatgccgtcccttggcctttggtgctggctgtattgttgtcctatattctcagtgtttcctttgggcttgtggtgttcggttttagtcactttgtttcttcctgtttctcttctgctctgcttgcctatctcctccctcaacctgaaccctctctaggcaactcttccatcccataccccaagagtcaacaaagccctacttgaagaccctggagcgacaggcaggaggtagcccctagcctcacagcatctcccagatattaggaagggctcacagtcacctttccttctctttccttgcttggagtaccagctcctcagattgcagaggggcatgtggtggcactggaacagcaatctctttgcagggttctagcctcccttatcagcgagtgcgagtgaagccttatggccacacacggtctcaggatttgttgacttccagtgggagtaggagcttctgtctatatgtcactagcacggcaaggtgtgctcttacaggctaccctgctctgcagactccctttcagggtggtgtggcattgggcaagcccagtactttctgggattgtcttgcctggataagatgactaagaagattctgtttatttccaaccacccatagcctctaaccttgtatggcagaggctttggttaggtctaacaatgaccttcattacaaacacccagagaggcccgatgagtaagttagaacattactgttgttttgctgaggaacagtgagtcctgcatacctgaagctctctgtgggtaccgcctcagtttctcagtaaatgcattcctttctgggttagacaatctggatttggtcctattttacttggattccagtgcgagccttgggggctactccatttccatgcccatggtgaggggtgggtaagatgacttggatagatttgtggttatgattcccaagccccacacccacacaatgggttgcctggcatggctggcctacagagccaataatgcccaccttagtaaggacagtctggactagggtaggaggagagggctttggccagtaaaaggtggggaggggaataacctgagacaggagaagcatgacagaaacaggagaatcgagcatgaatgagcctttgaacacgaggtgactggcctcgtgagagtgaagcagaaaacctagaatgcagcccagtagtcccacttccacacagtgagcaccaaaggcagttgagggtttcttaagaaggggtatcttcctgggatctggaatccggaaggcgagtccaaagccttgtgaacatcagaggaggagaaacttggccaaggggatgagaggttagcagatctgaggggttctgtggagggttgggtagggttcagtggcccatggttaccctattgtggttagcttcaagaaattatgtttctgaaatgtctcatctagaattgggcacagggctgaaactgtctttctagtcctgggtgcaaatgaccgattgtcactgggacttgggatctaaccatccccagtctccccaaccctctaagaaggaaggccacccgaggttgtattctgtcacgacacaagcctggtttaccctaggcttttcaaaaagctcttagatctttgtcatttgttctctcatttgctgacccaaacccacaaggccagagaaggaagggaagtcataggtgggtgttatcctcagggatgtcaagttaatttagggtaccagactcaggtactcaaagcagctgaaagagaaggggttgggagagagagataaccatgtcttcttggggtgattagatggcgtaatttttttgaagatattagagggcatgagtatggcaggtgaacccacttgctggacattactgatggaatctctcccaggcctgctggtcactttggacagagaacccaaggactaaacccttacgagcccttcaaggaaaagtcctgctcctctctgctccttcccgtttgaggtctcctttgctctgcttcgtcacttccctagagcatggttcaggggcctgggtccccgcctctatgcagaggctgattggctgtacagaccgctttccaaaccagctgttttgtgaccacttgtgcttagaggttgtaccggcccttggcaaaaaacccaccgtgtattgtgtttatttattctgttagttaaagaagcaaaactcaaacctctcactttcccttgtcctgccccctgcatagcacagcatgatgctctgtcccgtgtatctgtctgtcagtctgttggcctcacttcctgtgactttgtgacctgttctttgtcctaattggctaataaaagagaacctggcagcaca
//

by @meso_cacase at DBCLS
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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. [Full Text]