LOCUS       NM_010467               1878 bp    mRNA    linear   ROD 02-JUN-2024
DEFINITION  Mus musculus homeobox D1 (Hoxd1), mRNA.
ACCESSION   NM_010467
VERSION     NM_010467.2
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 1878)
  AUTHORS   Hintermann,A., Guerreiro,I., Lopez-Delisle,L., Bolt,C.C., Gitto,S.,
            Duboule,D. and Beccari,L.
  TITLE     Developmental and evolutionary comparative analysis of a regulatory
            landscape in mouse and chicken
  JOURNAL   Development 149 (12) (2022)
   PUBMED   35770682
REFERENCE   2  (bases 1 to 1878)
  AUTHORS   Sun,J., Ha,N., Liu,Z., Bian,Q. and Wang,X.
  TITLE     A Neural Crest-specific Overexpression Mouse Model Reveals the
            Transcriptional Regulatory Effects of Dlx2 During Maxillary Process
            Development
  JOURNAL   Front Physiol 13, 855959 (2022)
   PUBMED   35514355
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1878)
  AUTHORS   Amandio,A.R., Beccari,L., Lopez-Delisle,L., Mascrez,B., Zakany,J.,
            Gitto,S. and Duboule,D.
  TITLE     Sequential in cis mutagenesis in vivo reveals various functions for
            CTCF sites at the mouse HoxD cluster
  JOURNAL   Genes Dev 35 (21-22), 1490-1509 (2021)
   PUBMED   34711654
REFERENCE   4  (bases 1 to 1878)
  AUTHORS   Higashijima,Y., Nagai,N., Yamamoto,M., Kitazawa,T., Kawamura,Y.K.,
            Taguchi,A., Nakada,N., Nangaku,M., Furukawa,T., Aburatani,H.,
            Kurihara,H., Wada,Y. and Kanki,Y.
  TITLE     Lysine demethylase 7a regulates murine anterior-posterior
            development by modulating the transcription of Hox gene cluster
  JOURNAL   Commun Biol 3 (1), 725 (2020)
   PUBMED   33257809
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1878)
  AUTHORS   Sato,T., Kataoka,K., Ito,Y., Yokoyama,S., Inui,M., Mori,M.,
            Takahashi,S., Akita,K., Takada,S., Ueno-Kudoh,H. and Asahara,H.
  TITLE     Lin28a/let-7 pathway modulates the Hox code via Polycomb regulation
            during axial patterning in vertebrates
  JOURNAL   Elife 9, e53608 (2020)
   PUBMED   32479258
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1878)
  AUTHORS   Scott,M.P.
  TITLE     Vertebrate homeobox gene nomenclature
  JOURNAL   Cell 71 (4), 551-553 (1992)
   PUBMED   1358459
REFERENCE   7  (bases 1 to 1878)
  AUTHORS   Frohman,M.A. and Martin,G.R.
  TITLE     Isolation and analysis of embryonic expression of Hox-4.9, a member
            of the murine labial-like gene family
  JOURNAL   Mech Dev 38 (1), 55-67 (1992)
   PUBMED   1356009
REFERENCE   8  (bases 1 to 1878)
  AUTHORS   Nazarali,A., Kim,Y. and Nirenberg,M.
  TITLE     Hox-1.11 and Hox-4.9 homeobox genes
  JOURNAL   Proc Natl Acad Sci U S A 89 (7), 2883-2887 (1992)
   PUBMED   1348361
REFERENCE   9  (bases 1 to 1878)
  AUTHORS   Hunt,P., Gulisano,M., Cook,M., Sham,M.H., Faiella,A., Wilkinson,D.,
            Boncinelli,E. and Krumlauf,R.
  TITLE     A distinct Hox code for the branchial region of the vertebrate head
  JOURNAL   Nature 353 (6347), 861-864 (1991)
   PUBMED   1682814
REFERENCE   10 (bases 1 to 1878)
  AUTHORS   Dolle,P., Izpisua-Belmonte,J.C., Brown,J.M., Tickle,C. and
            Duboule,D.
  TITLE     HOX-4 genes and the morphogenesis of mammalian genitalia
  JOURNAL   Genes Dev 5 (10), 1767-1767 (1991)
   PUBMED   1680771
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL928733.14, BC120537.1 and BE956647.1.
            
            On Aug 23, 2006 this sequence version replaced NM_010467.1.
            
            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 :: X60034.1, BC120537.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849381, SAMN01164131
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-101               AL928733.14        30042-30142
            102-1613            BC120537.1         1-1512
            1614-1688           AL928733.14        31956-32030
            1689-1878           BE956647.1         1-190               c
FEATURES             Location/Qualifiers
     source          1..1878
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 44.13 cM"
     gene            1..1878
                     /gene="Hoxd1"
                     /gene_synonym="Hox-4.9"
                     /note="homeobox D1"
                     /db_xref="GeneID:15429"
                     /db_xref="MGI:MGI:96201"
     exon            1..774
                     /gene="Hoxd1"
                     /gene_synonym="Hox-4.9"
                     /inference="alignment:Splign:2.1.0"
     CDS             123..1109
                     /gene="Hoxd1"
                     /gene_synonym="Hox-4.9"
                     /note="homeobox protein Hox-4.9; homeo box D1"
                     /codon_start=1
                     /product="homeobox protein Hox-D1"
                     /protein_id="NP_034597.2"
                     /db_xref="CCDS:CCDS16147.1"
                     /db_xref="GeneID:15429"
                     /db_xref="MGI:MGI:96201"
                     /translation="MSSYLEYVSCAAGGGSGGVGGDVLGFAPKFCRADARPVALQPAF
                     PLGSGDGAFVSCLPLATARPTPSPPAGPAQSPVPQPAAPRYAPCTLEGAYERGAAPAS
                     AAEYGFLGSGPAFDFPGALGRAADEGGAHVHYATSAVFSGGGSFLLSGQVDFAAFGEP
                     GPFPACLKEPADGHPGPFQTVSPAPGACPKPASPTSSLPAAHSTFEWMKVKRNAPKKS
                     KLSEYGATSPPSAIRTNFSTKQLTELEKEFHFNKYLTRARRIEIANCLQLNDTQVKIW
                     FQNRRMKQKKREREGLLATAASVASIKLPRSETSPIKSGRNLGSPSQAQEPS"
     exon            775..1862
                     /gene="Hoxd1"
                     /gene_synonym="Hox-4.9"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1843..1848
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Hoxd1"
                     /gene_synonym="Hox-4.9"
                     /note="hexamer: AATAAA"
     polyA_site      1862
                     /gene="Hoxd1"
                     /gene_synonym="Hox-4.9"
                     /note="major polyA site"
ORIGIN      
        1 atatgaagcc actatttacc tcgggctcgc tcgccatggc tcggcgaggg cagcgggggt
       61 agcgggaagg cggagctgcg cagacctgca gggtgcggcg cctaggtcgt gcggagcgag
      121 ccatgagctc ttacctggag tacgtgtcgt gcgccgcggg cggtggcagc ggaggggtag
      181 gcggcgacgt gctcggcttc gcacccaagt tctgccgcgc cgacgcgcgc cctgtggccc
      241 tgcagccggc cttccccctg ggcagcggag acggcgcctt cgtgagctgc ctgcccctgg
      301 ccaccgctcg gcccacgccg tcgcctcccg caggccccgc tcagtccccg gtcccacagc
      361 ccgccgcgcc ccggtacgcg ccctgcaccc tggaaggcgc ctacgagcgg ggcgccgcac
      421 ctgcctctgc cgccgagtat ggcttcttgg ggtccgggcc ggcgtttgac ttcccgggcg
      481 cacttgggag agcggcggac gagggcgggg cgcacgtcca ctatgccacc tcggcggtct
      541 tctccggcgg gggatcattc ctgctcagcg gccaggtgga cttcgctgcc tttggcgagc
      601 ctggcccctt ccccgcgtgt ctcaaggagc ccgcagacgg ccaccccggg ccctttcaga
      661 ctgtgtcccc ggcccctgga gcctgcccca agccggcctc tcccacctcc agcctcccgg
      721 ccgcccacag cactttcgag tggatgaaag tgaagaggaa cgcccccaag aaaagcaaac
      781 tgtccgaata tggagccaca agccctccca gtgccatccg cacaaatttc agcaccaagc
      841 aactgacaga gctagagaaa gagtttcatt tcaataagta cctaactaga gcccgacgca
      901 tcgagatagc caactgttta cagctgaatg acacccaggt caaaatctgg ttccagaacc
      961 gtaggatgaa gcagaagaag agggaacgag aggggcttct ggccacagct gcctctgtgg
     1021 cctcgattaa gcttccccgg tcagaaacaa gtcccatcaa atctggccgg aatctaggaa
     1081 gcccttctca ggctcaagag ccttcctgag gcccactctt aaggctgagg accttgggtc
     1141 tacagaagtc acagactgct ccccaccttt gaatagactt gagagcttag tttgggctgg
     1201 aggtgggcat gggtagaaat taatacggat tttacttggc aaaggaattg tctaaattgg
     1261 cttctgagtt ccagaggctg tgtatagaga tatatatttg atatctttta ttcgcatatt
     1321 atttttgcct catggggagg aaaggtgtct tagctacctg cctaaacgct gctatgtgag
     1381 ccacttaaaa ttctcgggtg cagagtggca ggccttctta gtctagtgtg gtcagaaacg
     1441 tatctctctg aagttgtttc agttttaatt tcctggacag actacatata ttcagcttcc
     1501 tgagatgatc aaagctagct agggtttcct ctatgtagct aagctgcttc aatgatgatc
     1561 ttcatattgt gctccagttt gtttatttaa agtggcgctc ctacctcttc gtgtgcctgg
     1621 gtgaagaaac acaatcactg tttagttagt agcggaacaa atccacaggg taggtaagga
     1681 ttagaatctg aattatacct tggcatcagt tactcaaact tgaagtgtaa atatatacag
     1741 tatgtatatt ttttaaagat ttgcttgcag tgaaccttat atatgacatt taatgtcatg
     1801 catagcatgt aaagattttg actttttttt tttttttttg gtaataaaag ttacagaatc
     1861 taaaaaaaaa aaaaaaaa
//
