LOCUS       NM_153633               1708 bp    mRNA    linear   PRI 03-SEP-2024
DEFINITION  Homo sapiens homeobox C4 (HOXC4), transcript variant 2, mRNA.
ACCESSION   NM_153633
VERSION     NM_153633.3
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 1708)
  AUTHORS   Zhang,H., Han,B., Tian,S., Gong,Y., Chen,L. and Liu,L.
  TITLE     HOXC4 promotes proliferation of pancreatic cancer cells by
            increasing LDHA-mediated glycolysis
  JOURNAL   Aging (Albany NY) 16 (13), 11103-11116 (2024)
   PUBMED   38990159
  REMARK    GeneRIF: HOXC4 promotes proliferation of pancreatic cancer cells by
            increasing LDHA-mediated glycolysis.
REFERENCE   2  (bases 1 to 1708)
  AUTHORS   Brockmeyer,D.L., Cheshier,S.H., Stevens,J., Facelli,J.C., Rowe,K.,
            Heiss,J.D., Musolf,A., Viskochil,D.H., Allen-Brady,K.L. and
            Cannon-Albright,L.A.
  TITLE     A likely HOXC4 predisposition variant for Chiari malformations
  JOURNAL   J Neurosurg 139 (1), 266-274 (2022)
   PUBMED   36433874
  REMARK    GeneRIF: A likely HOXC4 predisposition variant for Chiari
            malformations.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1708)
  AUTHORS   Yang,T., Zhang,X.B., Li,X.N., Sun,M.Z. and Gao,P.Z.
  TITLE     Homeobox C4 promotes hepatocellular carcinoma progression by the
            transactivation of Snail
  JOURNAL   Neoplasma 68 (1), 23-30 (2021)
   PUBMED   32977722
  REMARK    GeneRIF: Homeobox C4 promotes hepatocellular carcinoma progression
            by the transactivation of Snail.
REFERENCE   4  (bases 1 to 1708)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   5  (bases 1 to 1708)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   6  (bases 1 to 1708)
  AUTHORS   Meazza,R., Faiella,A., Corsetti,M.T., Airoldi,I., Ferrini,S.,
            Boncinelli,E. and Corte,G.
  TITLE     Expression of HOXC4 homeoprotein in the nucleus of activated human
            lymphocytes
  JOURNAL   Blood 85 (8), 2084-2090 (1995)
   PUBMED   7718879
REFERENCE   7  (bases 1 to 1708)
  AUTHORS   Acampora,D., D'Esposito,M., Faiella,A., Pannese,M., Migliaccio,E.,
            Morelli,F., Stornaiuolo,A., Nigro,V., Simeone,A. and Boncinelli,E.
  TITLE     The human HOX gene family
  JOURNAL   Nucleic Acids Res 17 (24), 10385-10402 (1989)
   PUBMED   2574852
REFERENCE   8  (bases 1 to 1708)
  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
REFERENCE   9  (bases 1 to 1708)
  AUTHORS   Simeone,A., Pannese,M., Acampora,D., D'Esposito,M. and
            Boncinelli,E.
  TITLE     At least three human homeoboxes on chromosome 12 belong to the same
            transcription unit
  JOURNAL   Nucleic Acids Res 16 (12), 5379-5390 (1988)
   PUBMED   2898768
REFERENCE   10 (bases 1 to 1708)
  AUTHORS   Rabin,M., Ferguson-Smith,A., Hart,C.P. and Ruddle,F.H.
  TITLE     Cognate homeo-box loci mapped on homologous human and mouse
            chromosomes
  JOURNAL   Proc Natl Acad Sci U S A 83 (23), 9104-9108 (1986)
   PUBMED   2878432
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC023794.37 and BC050442.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 23, 2018 this sequence version replaced NM_153633.2.
            
            Summary: This gene belongs to the homeobox family of genes. The
            homeobox genes encode a highly conserved family of transcription
            factors that play an important role in morphogenesis in all
            multicellular organisms. Mammals possess four similar homeobox gene
            clusters, HOXA, HOXB, HOXC and HOXD, which are located on different
            chromosomes and consist of 9 to 11 genes arranged in tandem. This
            gene, HOXC4, is one of several homeobox HOXC genes located in a
            cluster on chromosome 12. Three genes, HOXC5, HOXC4 and HOXC6,
            share a 5' non-coding exon. Transcripts may include the shared exon
            spliced to the gene-specific exons, or they may include only the
            gene-specific exons. Two alternatively spliced variants that encode
            the same protein have been described for HOXC4. Transcript variant
            one includes the shared exon, and transcript variant two includes
            only gene-specific exons. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (2) differs in the 5' UTR compared
            to variant 1. Variants 1 and 2 encode the same isoform.
            
            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 :: BC050442.1, SRR1163658.59866.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000430889.3/ ENSP00000399808.2
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-42                AC023794.37        21495-21536
            43-536              BC050442.1         1-494
            537-1674            AC023794.37        22519-23656
            1675-1708           BC050442.1         1629-1662
FEATURES             Location/Qualifiers
     source          1..1708
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12q13.13"
     gene            1..1708
                     /gene="HOXC4"
                     /gene_synonym="cp19; HOX3; HOX3E"
                     /note="homeobox C4"
                     /db_xref="GeneID:3221"
                     /db_xref="HGNC:HGNC:5126"
                     /db_xref="MIM:142974"
     exon            1..527
                     /gene="HOXC4"
                     /gene_synonym="cp19; HOX3; HOX3E"
                     /inference="alignment:Splign:2.1.0"
     CDS             89..883
                     /gene="HOXC4"
                     /gene_synonym="cp19; HOX3; HOX3E"
                     /note="homeo box 3E; homeobox protein CP19; homeobox
                     protein Hox-3E"
                     /codon_start=1
                     /product="homeobox protein Hox-C4"
                     /protein_id="NP_705897.1"
                     /db_xref="CCDS:CCDS8873.1"
                     /db_xref="GeneID:3221"
                     /db_xref="HGNC:HGNC:5126"
                     /db_xref="MIM:142974"
                     /translation="MIMSSYLMDSNYIDPKFPPCEEYSQNSYIPEHSPEYYGRTRESG
                     FQHHHQELYPPPPPRPSYPERQYSCTSLQGPGNSRGHGPAQAGHHHPEKSQSLCEPAP
                     LSGASASPSPAPPACSQPAPDHPSSAASKQPIVYPWMKKIHVSTVNPNYNGGEPKRSR
                     TAYTRQQVLELEKEFHYNRYLTRRRRIEIAHSLCLSERQIKIWFQNRRMKWKKDHRLP
                     NTKVRSAPPAGAAPSTLSAATPGTSEDHSQSATPPEQQRAEDITRL"
     exon            528..1708
                     /gene="HOXC4"
                     /gene_synonym="cp19; HOX3; HOX3E"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1680..1685
                     /regulatory_class="polyA_signal_sequence"
                     /gene="HOXC4"
                     /gene_synonym="cp19; HOX3; HOX3E"
                     /note="hexamer: AATAAA"
     polyA_site      1708
                     /gene="HOXC4"
                     /gene_synonym="cp19; HOX3; HOX3E"
                     /note="major polyA site"
ORIGIN      
        1 aactttacag ggtcgctagc tagtaggagg gctttatgga gcagaaaaac gacaaagcga
       61 gaaaaattat tttccactcc agaaattaat gatcatgagc tcgtatttga tggactctaa
      121 ctacatcgat ccgaaatttc ctccatgcga agaatattcg caaaatagct acatccctga
      181 acacagtccg gaatattacg gccggaccag ggaatcggga ttccagcatc accaccagga
      241 gctgtaccca ccaccgcctc cgcgccctag ctaccctgag cgccagtata gctgcaccag
      301 tctccagggg cccggcaatt cgcgaggcca cgggccggcc caggcgggcc accaccaccc
      361 cgagaaatca cagtcgctct gcgagccggc gcctctctca ggcgcctccg cctccccgtc
      421 cccagccccg ccagcctgca gccagccagc ccccgaccat ccctccagcg ccgccagcaa
      481 gcaacccata gtctacccat ggatgaaaaa aattcacgtt agcacggtga accccaatta
      541 taacggaggg gaacccaagc gctcgaggac agcctatacc cggcagcaag tcctggaatt
      601 agagaaagag tttcattaca accgctacct gacccgaagg agaaggatcg agatcgccca
      661 ctcgctgtgc ctctctgaga ggcagatcaa aatctggttc caaaaccgtc gcatgaaatg
      721 gaagaaggac caccgactcc ccaacaccaa agtcaggtca gcacccccgg ccggcgctgc
      781 gcccagcacc ctttcggcag ctaccccggg tacttctgaa gaccactccc agagcgccac
      841 gccgccggag cagcaacggg cagaggacat taccaggtta taaaacataa ctcacacccc
      901 tgcccccacc ccatgccccc accctcccct cacacacaaa ttgactctta tttatagaat
      961 ttaatatata tatatatata tatatatata ggttcttttc tctcttcctc tcaccttgtc
     1021 ccttgtcagt tccaaacaga caaaacagat aaacaaacaa gccccctgcc ctcctctccc
     1081 tcccactgtt aaggaccctt ttaagcatgt gatgttgtct tagcatggta cctgctgggt
     1141 gttttttttt aaaaggccat tttggggggt tatttatttt ttaagaaaaa aagctgcaaa
     1201 aattatatat tgcaaggtgt gatggtctgg cttgggtgaa tttcagggga aatgaggaaa
     1261 agaaaaaagg aaagaaattt taaagccaat tctcatcctt ctcctcctcc tccttccccc
     1321 cctctttcct taggcctttt gcattgaaaa tgcaccaggg gaggttagtg agggggaagt
     1381 cattttaagg agaacaaagc tatgaagttc ttttgtatta ttgttggggg ggggtgtggg
     1441 aggagagggg gcgaagacag cagacaaagc taaatgcatc tggagagcct ctcagagctg
     1501 ttcagtttga ggagccaaaa gaaaatcaaa atgaactttc agttcagaga ggcagtctat
     1561 aggtagaatc tctccccacc cctatcgtgg ttattgtgtt tttggactga atttacttga
     1621 ttattgtaaa acttgcaata aagaatttta gtgtcgatgt gaaatgcccc gtgatcaata
     1681 ataaaccagt ggatgtgaat tagtttta
//
