LOCUS       NM_002141               1687 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens homeobox A4 (HOXA4), mRNA.
ACCESSION   NM_002141
VERSION     NM_002141.5
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 1687)
  AUTHORS   Zhou,Y., Wu,Q., Long,X., He,Y. and Huang,J.
  TITLE     lncRNA HOTAIRM1 Activated by HOXA4 Drives HUVEC Proliferation
            Through Direct Interaction with Protein Partner HSPA5
  JOURNAL   Inflammation 47 (1), 421-437 (2024)
   PUBMED   37898994
  REMARK    GeneRIF: lncRNA HOTAIRM1 Activated by HOXA4 Drives HUVEC
            Proliferation Through Direct Interaction with Protein Partner
            HSPA5.
REFERENCE   2  (bases 1 to 1687)
  AUTHORS   Yu,Z., Liu,Z., Lian,X., Cheng,X., Liu,B., Zhang,B., Wang,H.,
            Wang,J., Li,A., Ren,Z., Pang,B., Qian,R. and Gao,Y.
  TITLE     High expression of HOXA4 in patients with glioma indicates
            unfavorable clinical outcomes
  JOURNAL   Cell Cycle 21 (22), 2387-2402 (2022)
   PUBMED   35852388
  REMARK    GeneRIF: High expression of <i>HOXA4</i> in patients with glioma
            indicates unfavorable clinical outcomes.
REFERENCE   3  (bases 1 to 1687)
  AUTHORS   Aonuma,T., Moukette,B., Kawaguchi,S., Barupala,N.P.,
            Sepulveda,M.N., Frick,K., Tang,Y., Guglin,M., Raman,S.V., Cai,C.,
            Liangpunsakul,S., Nakagawa,S. and Kim,I.M.
  TITLE     MiR-150 Attenuates Maladaptive Cardiac Remodeling Mediated by Long
            Noncoding RNA MIAT and Directly Represses Profibrotic Hoxa4
  JOURNAL   Circ Heart Fail 15 (4), e008686 (2022)
   PUBMED   35000421
  REMARK    GeneRIF: MiR-150 Attenuates Maladaptive Cardiac Remodeling Mediated
            by Long Noncoding RNA MIAT and Directly Represses Profibrotic
            Hoxa4.
REFERENCE   4  (bases 1 to 1687)
  AUTHORS   Gao,L., He,R.Q., Huang,Z.G., Li,G.S., Zeng,J.H., Hou,J.Y.,
            Luo,J.Y., Dang,Y.W., Zhou,H.F., Kong,J.L., Yang,D.P., Feng,Z.B. and
            Chen,G.
  TITLE     Expression Landscape and Functional Roles of HOXA4 and HOXA5 in
            Lung Adenocarcinoma
  JOURNAL   Int J Med Sci 19 (3), 572-587 (2022)
   PUBMED   35370463
  REMARK    GeneRIF: Expression Landscape and Functional Roles of HOXA4 and
            HOXA5 in Lung Adenocarcinoma.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1687)
  AUTHORS   Barrow,T.M., Nakjang,S., Lafta,F., Bilotkach,K., Woodhouse,L.,
            Junge,G., Tudhope,S.J., Wallis,J.P., Marr,H., Marshall,S., Bown,N.,
            Willmore,E. and Strathdee,G.
  TITLE     Epigenome-wide analysis reveals functional modulators of drug
            sensitivity and post-treatment survival in chronic lymphocytic
            leukaemia
  JOURNAL   Br J Cancer 124 (2), 474-483 (2021)
   PUBMED   33082556
  REMARK    GeneRIF: Epigenome-wide analysis reveals functional modulators of
            drug sensitivity and post-treatment survival in chronic lymphocytic
            leukaemia.
REFERENCE   6  (bases 1 to 1687)
  AUTHORS   Scott,M.P.
  TITLE     Vertebrate homeobox gene nomenclature
  JOURNAL   Cell 71 (4), 551-553 (1992)
   PUBMED   1358459
REFERENCE   7  (bases 1 to 1687)
  AUTHORS   Buettner,R., Yim,S.O., Hong,Y.S., Boncinelli,E. and Tainsky,M.A.
  TITLE     Alteration of homeobox gene expression by N-ras transformation of
            PA-1 human teratocarcinoma cells
  JOURNAL   Mol Cell Biol 11 (7), 3573-3583 (1991)
   PUBMED   1675427
REFERENCE   8  (bases 1 to 1687)
  AUTHORS   Peverali,F.A., D'Esposito,M., Acampora,D., Bunone,G., Negri,M.,
            Faiella,A., Stornaiuolo,A., Pannese,M., Migliaccio,E., Simeone,A.
            et al.
  TITLE     Expression of HOX homeogenes in human neuroblastoma cell culture
            lines
  JOURNAL   Differentiation 45 (1), 61-69 (1990)
   PUBMED   1981366
REFERENCE   9  (bases 1 to 1687)
  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 1687)
  AUTHORS   Ferguson-Smith,A.C., Fienberg,A. and Ruddle,F.H.
  TITLE     Isolation, chromosomal localization, and nucleotide sequence of the
            human HOX 1.4 homeobox
  JOURNAL   Genomics 5 (2), 250-258 (1989)
   PUBMED   2571574
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AW445008.1, AC004080.2 and
            M74297.1.
            
            On May 17, 2019 this sequence version replaced NM_002141.4.
            
            Summary: In vertebrates, the genes encoding the class of
            transcription factors called homeobox genes are found in clusters
            named A, B, C, and D on four separate chromosomes. Expression of
            these proteins is spatially and temporally regulated during
            embryonic development. This gene is part of the A cluster on
            chromosome 7 and encodes a DNA-binding transcription factor which
            may regulate gene expression, morphogenesis, and differentiation.
            [provided by RefSeq, Jul 2008].
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data because no single transcript was available
            for the full length of the gene. The extent of this transcript is
            supported by transcript alignments.
            
            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 :: ERR279838.7690.1, ERR279835.1901.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2147920, SAMEA2155371
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000360046.10/ ENSP00000353151.5
            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
            1-231               AW445008.1         133-363             c
            232-232             AC004080.2         3896-3896           c
            233-363             AW445008.1         1-131               c
            364-442             M74297.1           340-418
            443-443             AC004080.2         3685-3685           c
            444-737             M74297.1           420-713
            738-1687            AC004080.2         1895-2844           c
FEATURES             Location/Qualifiers
     source          1..1687
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="7"
                     /map="7p15.2"
     gene            1..1687
                     /gene="HOXA4"
                     /gene_synonym="HOX1; HOX1D"
                     /note="homeobox A4"
                     /db_xref="GeneID:3201"
                     /db_xref="HGNC:HGNC:5105"
                     /db_xref="MIM:142953"
     exon            1..640
                     /gene="HOXA4"
                     /gene_synonym="HOX1; HOX1D"
                     /inference="alignment:Splign:2.1.0"
     CDS             25..987
                     /gene="HOXA4"
                     /gene_synonym="HOX1; HOX1D"
                     /note="homeo box A4; Hox-1.4-like protein; Dfd-like
                     protein; homeobox protein Hox-1D; homeobox protein
                     Hox-1.4"
                     /codon_start=1
                     /product="homeobox protein Hox-A4"
                     /protein_id="NP_002132.3"
                     /db_xref="CCDS:CCDS5405.1"
                     /db_xref="GeneID:3201"
                     /db_xref="HGNC:HGNC:5105"
                     /db_xref="MIM:142953"
                     /translation="MTMSSFLINSNYIEPKFPPFEEYAQHSGSGGADGGPGGGPGYQQ
                     PPAPPTQHLPLQQPQLPHAGGGREPTASYYAPRTAREPAYPAAALYPAHGAADTAYPY
                     GYRGGASPGRPPQPEQPPAQAKGPAHGLHASHVLQPQLPPPLQPRAVPPAAPRRCEAA
                     PATPGVPAGGSAPACPLLLADKSPLGLKGKEPVVYPWMKKIHVSAVNPSYNGGEPKRS
                     RTAYTRQQVLELEKEFHFNRYLTRRRRIEIAHTLCLSERQVKIWFQNRRMKWKKDHKL
                     PNTKMRSSNSASASAGPPGKAQTQSPHLHPHPHPSTSTPVPSSI"
     exon            641..1687
                     /gene="HOXA4"
                     /gene_synonym="HOX1; HOX1D"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1433..1438
                     /regulatory_class="polyA_signal_sequence"
                     /gene="HOXA4"
                     /gene_synonym="HOX1; HOX1D"
                     /note="hexamer: AATAAA"
     polyA_site      1460
                     /gene="HOXA4"
                     /gene_synonym="HOX1; HOX1D"
                     /note="major polyA site"
     regulatory      1666..1671
                     /regulatory_class="polyA_signal_sequence"
                     /gene="HOXA4"
                     /gene_synonym="HOX1; HOX1D"
                     /note="hexamer: AATAAA"
     polyA_site      1687
                     /gene="HOXA4"
                     /gene_synonym="HOX1; HOX1D"
                     /note="major polyA site"
ORIGIN      
        1 agtatttttg cacttcacaa attaatgacc atgagctcgt ttttgataaa ctccaactac
       61 atcgagccca agttccctcc cttcgaggag tacgcgcagc acagcggctc gggcggcgca
      121 gacggcggcc cgggcggggg ccccggctac cagcagcccc cagcgccccc gacccagcac
      181 ctgccgctgc agcagcccca gctccctcac gcgggcggcg gccgagagcc cactgcctcc
      241 tactacgcgc cgcggaccgc ccgcgagccc gcctaccctg ctgccgcgct gtaccccgcg
      301 catggggccg cggacaccgc ctacccctat ggctaccgcg gcggcgccag ccccgggcgg
      361 ccgccccagc ccgagcagcc cccggcgcaa gccaagggcc cagcgcacgg cctgcatgcg
      421 agccacgtcc tgcagcccca gctgccgccg cccctgcagc ctcgcgccgt gcccccagcg
      481 gccccgcggc gctgcgaggc ggcccccgcc accccaggcg tcccggcagg gggcagcgcc
      541 cccgcgtgcc cgctgctctt ggccgacaag agcccgctgg gcctgaaggg caaggagccc
      601 gtggtgtacc cctggatgaa gaagatccat gtcagcgccg ttaaccccag ttataacgga
      661 ggggagccta agcgctctcg aaccgcctac acccggcagc aggtcttgga gctggagaag
      721 gagttccact tcaatcgata cctgacccgg cggcgccgca tcgagatcgc ccacacgctc
      781 tgtttgtctg agcgccaggt caagatctgg tttcagaacc ggaggatgaa gtggaagaaa
      841 gaccacaaac tgcccaacac caagatgcga tcctccaatt cggcctcggc ctctgccggc
      901 ccaccaggga aagcacaaac tcagagccca cacctccatc cccaccccca cccgagcacc
      961 tccacacccg ttccctcctc catataatct tctagagatc ttaaccagtt tctatccctt
     1021 acctgctttt ctcttctctt ctcctgctcc gttcctcatc cacccctccc catctggacc
     1081 ataatagaca ccaaaacaaa cccaaattgg tgaaaagaat aatcaaaaag aagacattat
     1141 ccggttaaga gtctgtgctg gttgccaccc aagagagaac agttgtccag gatgctggct
     1201 ggtggaacaa cctgctggcc cgaaacaagg ctgccaggtg tggatacctg agaaggacta
     1261 cttggtatca aatacttttg agatggctac agtcagctag ctggacagcc catgctgagt
     1321 ggggacatac acttgcatct ttgttgaaag cagaagaaga cagacccttt ccccaccttc
     1381 cttacctcct cttcccccat taaggcagct catccaagct tgtatttaac tgaataaatg
     1441 agtagacatt gtggacctca caagattatt taattcttaa gatgtgtaga ccttgatggt
     1501 aggtgtgaca tgttagtttt tcttacttgc atttatttaa gacactgtta cagagatact
     1561 gttgtcccct tctggggcac ggtctttggg gagaggggag tgcatttaga cttatgtgga
     1621 actgtacaaa ttgtgatgtg gctacataga aagccatgtg ctaagaataa actccattta
     1681 aaaaaca
//
