GGRNA | NR_037939.1

LOCUS       NR_037939               2276 bp    RNA     linear   PRI 16-JUL-2013
DEFINITION  Homo sapiens homeobox A10 (HOXA10), transcript variant 2,
            non-coding RNA.
ACCESSION   NR_037939
VERSION     NR_037939.1  GI:325652049
KEYWORDS    RefSeq.
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 2276)
  AUTHORS   Ekici,A.B., Strissel,P.L., Oppelt,P.G., Renner,S.P., Brucker,S.,
            Beckmann,M.W. and Strick,R.
  TITLE     HOXA10 and HOXA13 sequence variations in human female genital
            malformations including congenital absence of the uterus and vagina
  JOURNAL   Gene 518 (2), 267-272 (2013)
   PUBMED   23376215
  REMARK    GeneRIF: Rare DNA sequence variations in the HOXA10 gene could
            contribute to the misdevelopment of female internal genitalia.
REFERENCE   2  (bases 1 to 2276)
  AUTHORS   Gallo,M., Ho,J., Coutinho,F.J., Vanner,R., Lee,L., Head,R.,
            Ling,E.K., Clarke,I.D. and Dirks,P.B.
  TITLE     A tumorigenic MLL-homeobox network in human glioblastoma stem cells
  JOURNAL   Cancer Res. 73 (1), 417-427 (2013)
   PUBMED   23108137
  REMARK    GeneRIF: We found that MLL directly activates the Homeobox gene
            HOXA10 in human glioblastoma
REFERENCE   3  (bases 1 to 2276)
  AUTHORS   Bei,L., Shah,C., Wang,H., Huang,W., Roy,R. and Eklund,E.A.
  TITLE     beta-Catenin activates the HOXA10 and CDX4 genes in myeloid
            progenitor cells
  JOURNAL   J. Biol. Chem. 287 (47), 39589-39601 (2012)
   PUBMED   23038246
  REMARK    GeneRIF: a molecular mechanisms through which increased expression
            of HoxA10 increases Cdx4 expression by direct CDX4 activation and
            by Fgf2-induced beta-catenin activity. This results in Cdx4-induced
            HoxA10-expression, creating a positive feedback mechanism
REFERENCE   4  (bases 1 to 2276)
  AUTHORS   Zhang,Y.J., Jia,X.H., Li,J.C. and Xu,Y.H.
  TITLE     [Effect of HOXA10 gene silenced by shRNA on proliferation and
            apoptosis of U937cell line]
  JOURNAL   Zhongguo Dang Dai Er Ke Za Zhi 14 (10), 785-791 (2012)
   PUBMED   23092574
  REMARK    GeneRIF: Compared with the negative control and untreated groups,
            mRNA level of HOXA10 decreased by (92.3+/-1.3)%, protein levels
            decreased by 91.1%, and the inhibition rate of U937 cells
            [(43.9+/-0.7)%] increased in the interference group
REFERENCE   5  (bases 1 to 2276)
  AUTHORS   Wang,X., Shaffer,J.R., Zeng,Z., Begum,F., Vieira,A.R., Noel,J.,
            Anjomshoaa,I., Cuenco,K.T., Lee,M.K., Beck,J., Boerwinkle,E.,
            Cornelis,M.C., Hu,F.B., Crosslin,D.R., Laurie,C.C., Nelson,S.C.,
            Doheny,K.F., Pugh,E.W., Polk,D.E., Weyant,R.J., Crout,R.,
            McNeil,D.W., Weeks,D.E., Feingold,E. and Marazita,M.L.
  TITLE     Genome-wide association scan of dental caries in the permanent
            dentition
  JOURNAL   BMC Oral Health 12, 57 (2012)
   PUBMED   23259602
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2276)
  AUTHORS   Scott,M.P.
  TITLE     Vertebrate homeobox gene nomenclature
  JOURNAL   Cell 71 (4), 551-553 (1992)
   PUBMED   1358459
REFERENCE   7  (bases 1 to 2276)
  AUTHORS   Lowney,P., Corral,J., Detmer,K., LeBeau,M.M., Deaven,L.,
            Lawrence,H.J. and Largman,C.
  TITLE     A human Hox 1 homeobox gene exhibits myeloid-specific expression of
            alternative transcripts in human hematopoietic cells
  JOURNAL   Nucleic Acids Res. 19 (12), 3443-3449 (1991)
   PUBMED   1676505
REFERENCE   8  (bases 1 to 2276)
  AUTHORS   McAlpine,P.J. and Shows,T.B.
  TITLE     Nomenclature for human homeobox genes
  JOURNAL   Genomics 7 (3), 460 (1990)
   PUBMED   1973146
REFERENCE   9  (bases 1 to 2276)
  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   10 (bases 1 to 2276)
  AUTHORS   Shen,W.F., Largman,C., Lowney,P., Corral,J.C., Detmer,K.,
            Hauser,C.A., Simonitch,T.A., Hack,F.M. and Lawrence,H.J.
  TITLE     Lineage-restricted expression of homeobox-containing genes in human
            hematopoietic cell lines
  JOURNAL   Proc. Natl. Acad. Sci. U.S.A. 86 (21), 8536-8540 (1989)
   PUBMED   2573064
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL710880.1, DB267919.1,
            BC071843.1, BC013971.2 and BF196481.1.
            
            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 that
            may regulate gene expression, morphogenesis, and differentiation.
            More specifically, it may function in fertility, embryo viability,
            and regulation of hematopoietic lineage commitment. Alternatively
            spliced transcript variants have been described. Read-through
            transcription also exists between this gene and the downstream
            homeobox A9 (HOXA9) gene. [provided by RefSeq, Mar 2011].
            
            Transcript Variant: This variant (2) contains an alternate 5' exon,
            compared to variant 1. It is represented as non-coding due to the
            presence of an upstream ORF that is predicted to interfere with
            translation of the longest ORF; translation of the upstream ORF
            renders the transcript a candidate for nonsense-mediated mRNA decay
            (NMD).
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on 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.
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-4                 AL710880.1         1-4
            5-577               DB267919.1         2-574
            578-1557            BC071843.1         213-1192
            1558-1827           BC013971.2         1898-2167
            1828-2191           BF196481.1         10-373              c
            2192-2276           BC013971.2         2534-2618
FEATURES             Location/Qualifiers
     source          1..2276
                     /organism="Homo sapiens"
                     /mol_type="transcribed RNA"
                     /db_xref="taxon:9606"
                     /chromosome="7"
                     /map="7p15.2"
     gene            1..2276
                     /gene="HOXA10"
                     /gene_synonym="HOX1; HOX1.8; HOX1H; PL"
                     /note="homeobox A10"
                     /db_xref="GeneID:3206"
                     /db_xref="HGNC:5100"
                     /db_xref="MIM:142957"
     misc_RNA        1..2276
                     /gene="HOXA10"
                     /gene_synonym="HOX1; HOX1.8; HOX1H; PL"
                     /product="homeobox A10, transcript variant 2"
                     /db_xref="GeneID:3206"
                     /db_xref="HGNC:5100"
                     /db_xref="MIM:142957"
     exon            1..616
                     /gene="HOXA10"
                     /gene_synonym="HOX1; HOX1.8; HOX1H; PL"
                     /inference="alignment:Splign:1.39.8"
     misc_feature    352..513
                     /gene="HOXA10"
                     /gene_synonym="HOX1; HOX1.8; HOX1H; PL"
                     /inference="COORDINATES: ab initio prediction:ORF Finder"
                     /note="long (>35aa) upstream ORF has strong Kozak
                     sequence; nonsense-mediated decay (NMD) candidate"
     misc_feature    607..891
                     /gene="HOXA10"
                     /gene_synonym="HOX1; HOX1.8; HOX1H; PL"
                     /inference="COORDINATES:
                     alignment:Blast2seq::RefSeq|NM_018951.3"
                     /note="primary ORF"
     exon            617..2199
                     /gene="HOXA10"
                     /gene_synonym="HOX1; HOX1.8; HOX1H; PL"
                     /inference="alignment:Splign:1.39.8"
     variation       861
                     /gene="HOXA10"
                     /gene_synonym="HOX1; HOX1.8; HOX1H; PL"
                     /replace="a"
                     /replace="g"
                     /db_xref="dbSNP:34957925"
     polyA_signal    2166..2171
                     /gene="HOXA10"
                     /gene_synonym="HOX1; HOX1.8; HOX1H; PL"
     polyA_site      2199
                     /gene="HOXA10"
                     /gene_synonym="HOX1; HOX1.8; HOX1H; PL"
ORIGIN

aaccaaagtctctcaagttgctagagagagtctagccaggaggactgctcgcgggcgggcggcgggcgggcgcgggtttgatttctgagccctataaaagcccatcctccgatggctgtgacaatgtggtcgtaaacccgtccggggccggccaatttgcatatttggaatgcgccgctataaacccggctggggttttgcagcgatttcttagatgtaaaaatgagatctcaatagcagcgggctgggcacatcctctcctctctccttctctctctgcccggagctggtttccgtctctcggctcggggctggaactccggcccaacctaggcgcgcagccgccacgagatggcgcacttccgatcaatgtcaaagccgccggggagccgggaaccccagcatgattcttggcctttgttcgcttctgatactaagagcagcacggtacattatttcacttgtcccgctccccttcataacagaaaaaggggactcaccctcaagaagtgattggtatggtaatttaaagcaacgcgcattcgctaggcctcgcgagcgtcgccgcgcggagaagccagctgtcccttggcagtgatttcggaaatgtgtcaaggcaattccaaaggtgaaaacgcagccaactggctcacggcaaagagtggtcggaagaagcgctgcccctacacgaagcaccagacactggagctggagaaggagtttctgttcaatatgtaccttactcgagagcggcgcctagagattagccgcagcgtccacctcacggacagacaagtgaaaatctggtttcagaaccgcaggatgaaactgaagaaaatgaatcgagaaaaccggatccgggagctcacagccaactttaatttttcctgatgaatctccaggcgacgcggttttttcacttcccgagcgctggtcccctccctctgtcttcaggctctgcccaggaactcgcacctgtgctggagccctgttcctccctcccacactcgccatctcctgggccgttacatctgtgcagggctggtttgttctgactttttgtttctttgtgtttgcttggtgctggtttatttgttgttttctgggggaaaaagccatatcatgctaaaattctatagagatagatattgtcctaagtgtcaagtcctgactgggctgggtttgctgtcttggggtcccactgctcgaaatggcccctgtcttcggccgagctggtttcctgcccagcctggggcaaacctagccggaaggccgaggtcccattgttggcgctgaggtgtctggcctgaggtcaatggtgcaaaggagccgccaccgggcatgtctgcctggagtgctgtgctgtgtttaatcaggggatacaggcccctgggtttcttttttctttcttcctttcttccttggccaagagaagggcttacaggcatggacatgcaggttggcaaacgggcttgactttggctgatttaaaaagtgagaaagaaagtaaaaaaggttaatttttccttcctctgtaagatatcccagctttaaaaagaaaaaaaaagaattaccaagagaaggggacttctcttccagtttctgtaaggtcttacattgcctgactaaaatgtttcatttacctctaaatttccatatccttctggctgtagataaataatgtagttttgtttatgcatttggaattagtggatttttttgtcattaaaattgttaccactggtaacatgtgacaagcacaccacaattctccctatcttgtgaagttgtttttttaaatcgccttgaacaaaaagttttttttttgtttgtttttgctttctgaaattcacagaagcctaggaggactggggtaagcggaataaactagagaagggagacattgtttggatttcctttatactgtgaagttacatgcataaaagggtcaaacctgtagatgcagaaaaagaaaaaaactataaatacaaatctgtataaatgtctattattatgaagaattgccaatcttgttttaagcaaatgcattctatcgttattataaatgttagttctagctctatttacttctaatcttaaatcagaataaattaatattgtattgctgctgtgcgtggaaaaagacgatgtttatgttcttatagaataaaagctgtggaatgaagctttttaattttaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa

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