LOCUS       NM_010449               2250 bp    mRNA    linear   ROD 28-JAN-2025
DEFINITION  Mus musculus homeobox A1 (Hoxa1), transcript variant 1, mRNA.
ACCESSION   NM_010449
VERSION     NM_010449.5
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 2250)
  AUTHORS   Frenette,B., Gueno,J., Houde,N., Landry-Truchon,K., Giguere,A.,
            Ashok,T., Ryckman,A., Morton,B.R., Mansfield,J.H. and Jeannotte,L.
  TITLE     Loss of Hoxa5 function affects Hox gene expression in different
            biological contexts
  JOURNAL   Sci Rep 14 (1), 30903 (2024)
   PUBMED   39730789
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2250)
  AUTHORS   Yang,J., Hu,W. and Zhao,J.
  TITLE     Overexpression of Homeobox A1 Relieves Ovalbumin-Induced Asthma in
            Mice and Is Associated with Blocking of the NF-kappaB Signaling
            Pathway
  JOURNAL   Crit Rev Immunol 44 (3), 25-35 (2024)
   PUBMED   38421703
  REMARK    GeneRIF: Overexpression of Homeobox A1 Relieves Ovalbumin-Induced
            Asthma in Mice and Is Associated with Blocking of the NF-kappaB
            Signaling Pathway.
REFERENCE   3  (bases 1 to 2250)
  AUTHORS   Petrelli,B., Ozturk,A., Pind,M., Ayele,H., Fainsod,A. and
            Hicks,G.G.
  TITLE     Genetically programmed retinoic acid deficiency during gastrulation
            phenocopies most known developmental defects due to acute prenatal
            alcohol exposure in FASD
  JOURNAL   Front Cell Dev Biol 11, 1208279 (2023)
   PUBMED   37397253
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2250)
  AUTHORS   Kessler,S., Minoux,M., Joshi,O., Ben Zouari,Y., Ducret,S., Ross,F.,
            Vilain,N., Salvi,A., Wolff,J., Kohler,H., Stadler,M.B. and
            Rijli,F.M.
  TITLE     A multiple super-enhancer region establishes inter-TAD interactions
            and controls Hoxa function in cranial neural crest
  JOURNAL   Nat Commun 14 (1), 3242 (2023)
   PUBMED   37277355
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2250)
  AUTHORS   Odelin,G., Faucherre,A., Marchese,D., Pinard,A., Jaouadi,H., Le
            Scouarnec,S., Chiarelli,R., Achouri,Y., Faure,E., Herbane,M.,
            Theron,A., Avierinos,J.F., Jopling,C., Collod-Beroud,G.,
            Rezsohazy,R. and Zaffran,S.
  CONSRTM   FranceGenRef Consortium
  TITLE     Variations in the poly-histidine repeat motif of HOXA1 contribute
            to bicuspid aortic valve in mouse and zebrafish
  JOURNAL   Nat Commun 14 (1), 1543 (2023)
   PUBMED   36941270
  REMARK    GeneRIF: Variations in the poly-histidine repeat motif of HOXA1
            contribute to bicuspid aortic valve in mouse and zebrafish.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2250)
  AUTHORS   Scott,M.P.
  TITLE     Vertebrate homeobox gene nomenclature
  JOURNAL   Cell 71 (4), 551-553 (1992)
   PUBMED   1358459
REFERENCE   7  (bases 1 to 2250)
  AUTHORS   Langston,A.W. and Gudas,L.J.
  TITLE     Identification of a retinoic acid responsive enhancer 3' of the
            murine homeobox gene Hox-1.6
  JOURNAL   Mech Dev 38 (3), 217-227 (1992)
   PUBMED   1360810
REFERENCE   8  (bases 1 to 2250)
  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 2250)
  AUTHORS   Chisaka,O., Musci,T.S. and Capecchi,M.R.
  TITLE     Developmental defects of the ear, cranial nerves and hindbrain
            resulting from targeted disruption of the mouse homeobox gene
            Hox-1.6
  JOURNAL   Nature 355 (6360), 516-520 (1992)
   PUBMED   1346922
REFERENCE   10 (bases 1 to 2250)
  AUTHORS   Fowlis,G.A., Adelman,S., Knight,A.M. and Simpson,E.
  TITLE     PCR-analyzed microsatellites of the mouse genome--additional
            polymorphisms among ten inbred mouse strains
  JOURNAL   Mamm Genome 3 (4), 192-196 (1992)
   PUBMED   1611214
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC091106.17.
            
            On Mar 18, 2023 this sequence version replaced NM_010449.4.
            
            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 :: AK083575.1, M22115.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849381
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-753               AC091106.17        30662-31414
            754-2250            AC091106.17        31892-33388
FEATURES             Location/Qualifiers
     source          1..2250
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 25.4 cM"
     gene            1..2250
                     /gene="Hoxa1"
                     /gene_synonym="ERA1; Hox-1.6"
                     /note="homeobox A1"
                     /db_xref="GeneID:15394"
                     /db_xref="MGI:MGI:96170"
     exon            1..753
                     /gene="Hoxa1"
                     /gene_synonym="ERA1; Hox-1.6"
                     /inference="alignment:Splign:2.1.0"
     CDS             99..1109
                     /gene="Hoxa1"
                     /gene_synonym="ERA1; Hox-1.6"
                     /note="isoform 1 is encoded by transcript variant 1;
                     homeobox protein Hox-A1; early retinoic acid 1; homeobox
                     protein Hox-1.6; homeotic protein ERA-1-993; homeoboxless
                     protein ERA-1-399"
                     /codon_start=1
                     /product="homeobox protein Hox-A1 isoform 1"
                     /protein_id="NP_034579.3"
                     /db_xref="CCDS:CCDS20138.1"
                     /db_xref="GeneID:15394"
                     /db_xref="MGI:MGI:96170"
                     /translation="MDNARMNSFLEYPILGSGDSGTCSARAYPSDHGITTFQSCAVSA
                     NSCGGDDRFLVGRGVQISSPHHHHHHHHHHHPQTATYQTSGNLGISYSHSSCGPSYGA
                     QNFSAPYGPYGLNQEADVSGGYPPCAPAVYSGNLSTPMVQHHHHHQGYAGGTVGSPQY
                     IHHSYGQEQQTLALATYNNSLSPLHASHQEACRSPASETSSPAQTFDWMKVKRNPPKT
                     GKVGEYGYVGQPNAVRTNFTTKQLTELEKEFHFNKYLTRARRVEIAASLQLNETQVKI
                     WFQNRRMKQKKREKEGLLPISPATPPGSDEKTEESSEKSSPSPSAPSPASSTSDTLTT
                     SH"
     exon            754..2250
                     /gene="Hoxa1"
                     /gene_synonym="ERA1; Hox-1.6"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2230..2235
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Hoxa1"
                     /gene_synonym="ERA1; Hox-1.6"
                     /note="hexamer: AATAAA"
     polyA_site      2250
                     /gene="Hoxa1"
                     /gene_synonym="ERA1; Hox-1.6"
                     /note="major polyA site"
ORIGIN      
        1 gtacattcat atcatttttc ttctctggtc ctatggagga agtgagaaag ttggcacggt
       61 cacccagggc ttcgcaggat ccaatcactc agtgacagat ggacaatgca agaatgaact
      121 cctttctgga ataccccatc cttggcagtg gcgactctgg gacctgctcg gcgcgagctt
      181 acccctctga ccatgggatt acaactttcc aatcctgcgc ggtcagtgcc aacagctgcg
      241 gcggcgacga ccgcttccta gtgggcaggg gggtgcagat cagctcgccc caccaccacc
      301 accaccacca ccaccatcac cacccccaga cggctactta ccagacttct ggaaaccttg
      361 ggatttctta ttcccactcg agttgtggtc caagctatgg cgcgcagaac ttcagtgcgc
      421 cttatggccc ctatggatta aatcaggaag cagacgtaag tggtgggtac cccccgtgcg
      481 ctcccgctgt ttactctgga aacctctcga ctcccatggt ccagcatcac caccaccacc
      541 agggttatgc tgggggcaca gtgggctcgc cccagtacat tcaccactca tatggacaag
      601 agcagcagac tctggccctg gccacgtata ataactcctt atcccctctc cacgccagcc
      661 accaagaagc ctgtcgttcc cctgcttcag agacgtcttc tccagcgcag acctttgact
      721 ggatgaaagt taaaagaaac cctcccaaaa cagggaaagt tggagagtac ggctacgtgg
      781 gtcaacccaa cgcagtgcgc accaatttca ccaccaagca gctcacagag ctggagaagg
      841 agttccactt caacaagtac cttacacgag cgcgcagggt ggagattgcc gcgtccctac
      901 agctcaatga gacccaggtg aagatctggt tccagaatcg ccgcatgaag cagaagaagc
      961 gtgagaagga ggggctcctg cccatctccc ctgccactcc tcctggcagc gatgagaaaa
     1021 cggaagaatc atctgagaaa tctagcccct cgcccagtgc cccttctccg gcatcgtcta
     1081 cctcagacac tctgactacc tcccactgag gctactccag cccaactctg cagcccaggc
     1141 ttctccctgg gctgggattt cttacccaaa gcacattctt agcttatctt cctttcttta
     1201 cagactctct cttcctttct cgtcccatct ggggagctcc tggccaagat aaggtatttc
     1261 cagagaattc tggagccttg gttggaagtt aactccttca tccacatcgg gtgtccacat
     1321 caattgctga tggctcccaa catcctttcc ttcactgttg tgagattttt ttctccccac
     1381 aacctatgat tccttttaga tgtcggctgg agaacagtta gttccctttg ccatcagaca
     1441 tttgcaggaa ggaggcatct ctccttttat ctatgtattg ttcttctcca cctagccctt
     1501 aagtaggaca tagaggagag agagtgtcca aagactcatg aagaagagat gcactgtgtt
     1561 tacacaatta attcaccccc taacttagct ggtttcatgt gtgtgagttt gctggttgta
     1621 aatgctttcc cgtcagagat ttatctttat acacatttta tagaaatatg taggtcacta
     1681 aatcaaacag ggtggacaaa ttctcaaaac tggtacagtt catgtgtgat tatgggcgaa
     1741 agaagaaaac ctctttcatt caaacagagt cagatgcctc agaagttggc ctcaattggt
     1801 tctttcagag ttaagaaggc ctgccaagca ctttgcctgt gccaggtctt cccaaactct
     1861 aaccaattct tcctgcttct ctggccaccc tgcatttaaa aatcatgctg gatcatttgt
     1921 aacccaaagg tattcattct ttcagtcacc ctttccttcc acactgtctt gtatcatggc
     1981 tggatccagt gtatttccag ctaattgtta atgtgatgga tggcacaatg aatgtatatt
     2041 ttgtgtgatt cgtgactagt cttctgcatg tcgcacaatg ttctgatgtc cctgaaatat
     2101 cacactgagt tctatcagtt attctttgtg agcctatgat agtctccatt tactgtacaa
     2161 tcatgaacag ctctgagatc ctggagtgat gtggtccaga gcagagttta cgggtcttaa
     2221 gatgtctgta ataaaagtat tcaagtttta
//
