LOCUS       NM_024501               1886 bp    mRNA    linear   PRI 12-NOV-2024
DEFINITION  Homo sapiens homeobox D1 (HOXD1), mRNA.
ACCESSION   NM_024501
VERSION     NM_024501.3
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 1886)
  AUTHORS   Hu,X., Zhang,S., Zhang,X., Liu,H., Diao,Y. and Li,L.
  TITLE     HOXD1 inhibits lung adenocarcinoma progression and is regulated by
            DNA methylation
  JOURNAL   Oncol Rep 52 (6) (2024)
   PUBMED   39450540
  REMARK    GeneRIF: HOXD1 inhibits lung adenocarcinoma progression and is
            regulated by DNA methylation.
REFERENCE   2  (bases 1 to 1886)
  AUTHORS   Zhang,C., Xie,L. and Lin,Z.
  TITLE     Homeobox-D 1 and FTO form a transcriptional-epigenetic feedback
            loop to promote head and neck cancer proliferation
  JOURNAL   Cell Biol Int 47 (12), 1987-1998 (2023)
   PUBMED   37655555
  REMARK    GeneRIF: Homeobox-D 1 and FTO form a transcriptional-epigenetic
            feedback loop to promote head and neck cancer proliferation.
REFERENCE   3  (bases 1 to 1886)
  AUTHORS   Wang,L., Wang,X., Sun,H., Wang,W. and Cao,L.
  TITLE     A pan-cancer analysis of the role of HOXD1, HOXD3, and HOXD4 and
            validation in renal cell carcinoma
  JOURNAL   Aging (Albany NY) 15 (19), 10746-10766 (2023)
   PUBMED   37827698
  REMARK    GeneRIF: A pan-cancer analysis of the role of HOXD1, HOXD3, and
            HOXD4 and validation in renal cell carcinoma.
REFERENCE   4  (bases 1 to 1886)
  AUTHORS   Cui,Y., Zhang,C., Li,Y., Ma,S., Cao,W. and Guan,F.
  TITLE     HOXD1 functions as a novel tumor suppressor in kidney renal clear
            cell carcinoma
  JOURNAL   Cell Biol Int 45 (6), 1246-1259 (2021)
   PUBMED   33559901
  REMARK    GeneRIF: HOXD1 functions as a novel tumor suppressor in kidney
            renal clear cell carcinoma.
REFERENCE   5  (bases 1 to 1886)
  AUTHORS   Yin,Y., Morgunova,E., Jolma,A., Kaasinen,E., Sahu,B.,
            Khund-Sayeed,S., Das,P.K., Kivioja,T., Dave,K., Zhong,F.,
            Nitta,K.R., Taipale,M., Popov,A., Ginno,P.A., Domcke,S., Yan,J.,
            Schubeler,D., Vinson,C. and Taipale,J.
  TITLE     Impact of cytosine methylation on DNA binding specificities of
            human transcription factors
  JOURNAL   Science 356 (6337) (2017)
   PUBMED   28473536
REFERENCE   6  (bases 1 to 1886)
  AUTHORS   Manohar,C.F., Salwen,H.R., Furtado,M.R. and Cohn,S.L.
  TITLE     Up-regulation of HOXC6, HOXD1, and HOXD8 homeobox gene expression
            in human neuroblastoma cells following chemical induction of
            differentiation
  JOURNAL   Tumour Biol 17 (1), 34-47 (1996)
   PUBMED   7501971
REFERENCE   7  (bases 1 to 1886)
  AUTHORS   Guazzi,S., Lonigro,R., Pintonello,L., Boncinelli,E., Di Lauro,R.
            and Mavilio,F.
  TITLE     The thyroid transcription factor-1 gene is a candidate target for
            regulation by Hox proteins
  JOURNAL   EMBO J 13 (14), 3339-3347 (1994)
   PUBMED   7913891
REFERENCE   8  (bases 1 to 1886)
  AUTHORS   Scott,M.P.
  TITLE     Vertebrate homeobox gene nomenclature
  JOURNAL   Cell 71 (4), 551-553 (1992)
   PUBMED   1358459
REFERENCE   9  (bases 1 to 1886)
  AUTHORS   McAlpine,P.J. and Shows,T.B.
  TITLE     Nomenclature for human homeobox genes
  JOURNAL   Genomics 7 (3), 460 (1990)
   PUBMED   1973146
REFERENCE   10 (bases 1 to 1886)
  AUTHORS   Boncinelli,E., Acampora,D., Pannese,M., D'Esposito,M., Somma,R.,
            Gaudino,G., Stornaiuolo,A., Cafiero,M., Faiella,A. and Simeone,A.
  TITLE     Organization of human class I homeobox genes
  JOURNAL   Genome 31 (2), 745-756 (1989)
   PUBMED   2576652
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AF241528.1 and BC014477.1.
            
            On Nov 22, 2018 this sequence version replaced NM_024501.2.
            
            Summary: This gene is a member of the Antp homeobox family and
            encodes a protein with a homeobox DNA-binding domain. This nuclear
            protein functions as a sequence-specific transcription factor that
            is involved in differentiation and limb development. Mutations in
            this gene have been associated with severe developmental defects on
            the anterior-posterior (a-p) limb axis. [provided by RefSeq, Jul
            2008].
            
            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 :: AF241528.1, BC014477.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000331462.6/ ENSP00000328598.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-787               AF241528.1         90-876
            788-1886            BC014477.1         781-1879
FEATURES             Location/Qualifiers
     source          1..1886
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2q31.1"
     gene            1..1886
                     /gene="HOXD1"
                     /gene_synonym="Hox-4.7; HOX4; HOX4G"
                     /note="homeobox D1"
                     /db_xref="GeneID:3231"
                     /db_xref="HGNC:HGNC:5132"
                     /db_xref="MIM:142987"
     exon            1..786
                     /gene="HOXD1"
                     /gene_synonym="Hox-4.7; HOX4; HOX4G"
                     /inference="alignment:Splign:2.1.0"
     CDS             135..1121
                     /gene="HOXD1"
                     /gene_synonym="Hox-4.7; HOX4; HOX4G"
                     /note="homeo box D1; homeo box 4G; homeobox protein
                     Hox-GG"
                     /codon_start=1
                     /product="homeobox protein Hox-D1"
                     /protein_id="NP_078777.1"
                     /db_xref="CCDS:CCDS2271.1"
                     /db_xref="GeneID:3231"
                     /db_xref="HGNC:HGNC:5132"
                     /db_xref="MIM:142987"
                     /translation="MSSYLEYVSCSSSGGVGGDVLSLAPKFCRSDARPVALQPAFPLG
                     NGDGAFVSCLPLAAARPSPSPPAAPARPSVPPPAAPQYAQCTLEGAYEPGAAPAAAAG
                     GADYGFLGSGPAYDFPGVLGRAADDGGSHVHYATSAVFSGGGSFLLSGQVDYAAFGEP
                     GPFPACLKASADGHPGAFQTASPAPGTYPKSVSPASGLPAAFSTFEWMKVKRNASKKG
                     KLAEYGAASPSSAIRTNFSTKQLTELEKEFHFNKYLTRARRIEIANCLHLNDTQVKIW
                     FQNRRMKQKKREREGLLATAIPVAPLQLPLSGTTPTKFIKNPGSPSQSQEPS"
     exon            787..1886
                     /gene="HOXD1"
                     /gene_synonym="Hox-4.7; HOX4; HOX4G"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1866..1871
                     /regulatory_class="polyA_signal_sequence"
                     /gene="HOXD1"
                     /gene_synonym="Hox-4.7; HOX4; HOX4G"
                     /note="hexamer: AATAAA"
     polyA_site      1886
                     /gene="HOXD1"
                     /gene_synonym="Hox-4.7; HOX4; HOX4G"
                     /note="major polyA site"
ORIGIN      
        1 gccatgggtt ggagagggca gctcgggtag agagggctgg cggagcggcg cagacggcgg
       61 cagtcctgct cagcctctgc ccggctccgt actccggccc cggcctgcgc cctcagaaag
      121 gtggggcccg aaccatgagc tcctacctgg agtacgtgtc atgcagcagc agcggcgggg
      181 tcggcggcga cgtgctcagc ttggcaccca agttctgccg ctccgacgcc cggcccgtgg
      241 ctctgcagcc cgccttccct ctgggcaacg gcgacggcgc cttcgtcagc tgtctgcccc
      301 tggccgccgc ccgaccctcg ccttcgcccc cggccgcccc cgcgcggccg tccgtaccgc
      361 ctccggccgc gccccagtac gcgcagtgca ccctggaggg ggcctacgaa cctggtgccg
      421 cacctgccgc ggcagctggg ggcgcggact acggcttcct ggggtccggg ccggcgtacg
      481 acttcccggg cgtgctgggg cgggcggccg acgacggcgg gtctcacgtc cactacgcca
      541 cctcggccgt cttctcgggc ggcggctctt tcctcctcag cggccaggtg gattacgcgg
      601 ccttcggcga acccggccct tttccggctt gtctcaaagc gtcagccgac ggccaccctg
      661 gtgctttcca gaccgcatcc ccggccccag gcacctaccc caagtccgtc tctcccgcct
      721 ccggcctccc tgccgccttc agcacgttcg agtggatgaa agtgaagagg aatgcctcta
      781 agaaaggcaa actcgccgag tatggggccg ctagcccctc cagcgcgatc cgcacgaatt
      841 tcagcaccaa gcaactgaca gaactggaaa aagagtttca tttcaataag tacttaactc
      901 gagcccggcg catcgagata gccaactgct tgcacctgaa tgacacgcaa gtcaaaatct
      961 ggttccagaa ccgcaggatg aaacagaaga aaagggaacg agaagggctt ctggccacgg
     1021 ccattcctgt ggctcccctc caacttcccc tctctggaac aacccccact aagtttatca
     1081 agaaccccgg cagcccttct cagtcccaag agccttcgtg aggccggtac ttggggccga
     1141 aaaactgtgg cctgcagaag tcccaggcga cccccatccc tatctagact taggagctca
     1201 gtttgggatg gaggtgggag aacaaaaatg aatagggatt tcacttggga aatgaagtac
     1261 tttagttggc ttccgagttc cagactatat gtccagatat taattgactg tcttgtaagc
     1321 cacttgtttg gttatgattt gtgtcttatc agggaaaagg tgcccagctg ccagcccagc
     1381 tccgctgcta tctttgcctc acttagtcat gtgcaattcg cgttgcagag tggcagacca
     1441 ttagttgctg agttctgtca gcactctgat gtgctcagaa gagcacctgc ccaaagtttt
     1501 tctggtttta atttaaagga caaggctaca tatattcagc tttttgagat gaccaaagct
     1561 agttagggtc tccttgatgt agctaagctg cttcagtgat cttcacattt gcactccagt
     1621 ttttttttct ttaaaaaagc ggtttctacc tctctatgtg cctgagtgat gatacaatcg
     1681 ctgtttagtt actagatgaa caaatccaca gaatgggtaa agagtagaat ctgaactata
     1741 tcttgacaaa tattattcaa acttgaatgt aaatatatac agtatgtata ttttttaaaa
     1801 agatttgctt gcaatgacct tataagtgac atttaatgtc atagcatgta aagggttttt
     1861 tttgtaataa aaattataga atctgc
//
