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Aliases for HMG20A Gene

Aliases for HMG20A Gene

  • High Mobility Group 20A 2 3 5
  • HMG Domain-Containing Protein HMGX1 3 4
  • HMG Domain-Containing Protein 1 3 4
  • HMG Box-Containing Protein 20A 3 4
  • HMG Box Domain Containing 1 2 3
  • HMGXB1 3 4
  • HMGX1 3 4
  • High Mobility Group Protein 20A 3
  • High-Mobility Group 20A 2

External Ids for HMG20A Gene

Previous GeneCards Identifiers for HMG20A Gene

  • GC15P073605
  • GC15P070803
  • GC15P075289
  • GC15P075429
  • GC15P075500
  • GC15P077712
  • GC15P054470

Summaries for HMG20A Gene

GeneCards Summary for HMG20A Gene

HMG20A (High Mobility Group 20A) is a Protein Coding gene. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding and chromatin binding. An important paralog of this gene is HMG20B.

UniProtKB/Swiss-Prot for HMG20A Gene

  • Plays a role in neuronal differentiation as chromatin-associated protein. Acts as inhibitor of HMG20B. Overcomes the repressive effects of the neuronal silencer REST and induces the activation of neuronal-specific genes. Involved in the recruitment of the histone methyltransferase KMT2A/MLL1 and consequent increased methylation of histone H3 lysine 4 (By similarity).

Gene Wiki entry for HMG20A Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HMG20A Gene

Genomics for HMG20A Gene

Regulatory Elements for HMG20A Gene

Enhancers for HMG20A Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH15F077481 1 Ensembl ENCODE 20.2 +62.5 62477 3.3 CTCF JUN RAD21 ZIC2 ZNF664 ZFP69B JUND ZFHX2 ZNF692 PBX2 HMG20A LOC101929457 GC15P077482 GC15P077484 PIR35087
GH15F077446 0.2 ENCODE 12.4 +26.9 26917 0.9 HLF GLI4 ZIC2 TFDP1 CREB3 POLR2A GLIS1 ZBTB33 ZBTB17 HMG20A PEAK1 LOC101929457 GC15P077482
GH15F077384 0.5 Ensembl 12.4 -35.1 -35112 1.0 SCRT1 ZNF263 ZNF316 SCRT2 MAFG EMSY MAFK ZBTB40 HMG20A PEAK1 GC15P077340
GH15F077387 0.2 Ensembl 12.4 -32.4 -32412 0.4 ZNF121 HMG20A TSPAN3 PEAK1 GC15P077340
GH15F077391 0.2 Ensembl 12.3 -29.3 -29312 0.2 HMG20A PEAK1 GC15P077340
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around HMG20A on UCSC Golden Path with GeneCards custom track

Promoters for HMG20A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000411727 -112 4201 HDGF ARNT CREB3L1 SIN3A FEZF1 DMAP1 ZNF2 YY1 ZNF302 ZNF207

Genomic Location for HMG20A Gene

Chromosome:
15
Start:
77,420,412 bp from pter
End:
77,485,607 bp from pter
Size:
65,196 bases
Orientation:
Plus strand

Genomic View for HMG20A Gene

Genes around HMG20A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HMG20A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HMG20A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HMG20A Gene

Proteins for HMG20A Gene

  • Protein details for HMG20A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NP66-HM20A_HUMAN
    Recommended name:
    High mobility group protein 20A
    Protein Accession:
    Q9NP66
    Secondary Accessions:
    • A6NHY3
    • D3DW78
    • Q53G31
    • Q9NSF6

    Protein attributes for HMG20A Gene

    Size:
    347 amino acids
    Molecular mass:
    40144 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for HMG20A Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for HMG20A Gene

Post-translational modifications for HMG20A Gene

  • Ubiquitination at Lys 230
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for HMG20A Gene

Domains & Families for HMG20A Gene

Gene Families for HMG20A Gene

Protein Domains for HMG20A Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for HMG20A Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9NP66

UniProtKB/Swiss-Prot:

HM20A_HUMAN :
  • Contains 1 HMG box DNA-binding domain.
Domain:
  • Contains 1 HMG box DNA-binding domain.
genes like me logo Genes that share domains with HMG20A: view

Function for HMG20A Gene

Molecular function for HMG20A Gene

UniProtKB/Swiss-Prot Function:
Plays a role in neuronal differentiation as chromatin-associated protein. Acts as inhibitor of HMG20B. Overcomes the repressive effects of the neuronal silencer REST and induces the activation of neuronal-specific genes. Involved in the recruitment of the histone methyltransferase KMT2A/MLL1 and consequent increased methylation of histone H3 lysine 4 (By similarity).

Gene Ontology (GO) - Molecular Function for HMG20A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA,NAS 10773667
GO:0003700 transcription factor activity, sequence-specific DNA binding NAS 10773667
GO:0004003 ATP-dependent DNA helicase activity IEA --
GO:0005515 protein binding IPI 16189514
GO:0042802 identical protein binding IPI 16189514
genes like me logo Genes that share ontologies with HMG20A: view
genes like me logo Genes that share phenotypes with HMG20A: view

Animal Model Products

miRNA for HMG20A Gene

miRTarBase miRNAs that target HMG20A

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HMG20A Gene

Localization for HMG20A Gene

Subcellular locations from UniProtKB/Swiss-Prot for HMG20A Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for HMG20A Gene COMPARTMENTS Subcellular localization image for HMG20A gene
Compartment Confidence
nucleus 5
cytosol 1

Gene Ontology (GO) - Cellular Components for HMG20A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus NAS 10773667
genes like me logo Genes that share ontologies with HMG20A: view

Pathways & Interactions for HMG20A Gene

SuperPathways for HMG20A Gene

No Data Available

Gene Ontology (GO) - Biological Process for HMG20A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IEA --
GO:0006303 double-strand break repair via nonhomologous end joining IEA --
GO:0006325 chromatin organization NAS 10773667
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated NAS 10773667
genes like me logo Genes that share ontologies with HMG20A: view

No data available for Pathways by source and SIGNOR curated interactions for HMG20A Gene

Transcripts for HMG20A Gene

Unigene Clusters for HMG20A Gene

High mobility group 20A:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for HMG20A Gene

ExUns: 1 ^ 2 ^ 3a · 3b · 3c ^ 4a · 4b · 4c ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8a · 8b · 8c ^ 9a · 9b ^ 10a · 10b
SP1: - - -
SP2: -
SP3: - -
SP4: -
SP5: - -
SP6:
SP7:

Relevant External Links for HMG20A Gene

GeneLoc Exon Structure for
HMG20A
ECgene alternative splicing isoforms for
HMG20A

Expression for HMG20A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for HMG20A Gene

Protein differential expression in normal tissues from HIPED for HMG20A Gene

This gene is overexpressed in Blymphocyte (12.3), Fetal ovary (11.2), and CD8 Tcells (11.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for HMG20A Gene



Protein tissue co-expression partners for HMG20A Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of HMG20A Gene:

HMG20A

SOURCE GeneReport for Unigene cluster for HMG20A Gene:

Hs.69594

mRNA Expression by UniProt/SwissProt for HMG20A Gene:

Q9NP66-HM20A_HUMAN
Tissue specificity: Ubiquitous.
genes like me logo Genes that share expression patterns with HMG20A: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for HMG20A Gene

Orthologs for HMG20A Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for HMG20A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HMG20A 34 35
  • 99.71 (n)
dog
(Canis familiaris)
Mammalia HMG20A 34 35
  • 95 (n)
cow
(Bos Taurus)
Mammalia HMG20A 34 35
  • 94.24 (n)
oppossum
(Monodelphis domestica)
Mammalia HMG20A 35
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Hmg20a 34 16 35
  • 91.62 (n)
rat
(Rattus norvegicus)
Mammalia Hmg20a 34
  • 90.59 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia HMG20A 35
  • 90 (a)
OneToOne
chicken
(Gallus gallus)
Aves -- 35
  • 89 (a)
OneToMany
HMG20A 34 35
  • 78 (n)
lizard
(Anolis carolinensis)
Reptilia HMG20A 35
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.8432 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.7860 34
zebrafish
(Danio rerio)
Actinopterygii hmg20a 34 35
  • 69.11 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP004791 34
  • 49.21 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG9418 34 35
  • 47.73 (n)
worm
(Caenorhabditis elegans)
Secernentea hmg-20 35
  • 19 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes NHP6A 37
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 38 (a)
OneToMany
Species where no ortholog for HMG20A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for HMG20A Gene

ENSEMBL:
Gene Tree for HMG20A (if available)
TreeFam:
Gene Tree for HMG20A (if available)

Paralogs for HMG20A Gene

Paralogs for HMG20A Gene

(1) SIMAP similar genes for HMG20A Gene using alignment to 8 proteins:

genes like me logo Genes that share paralogs with HMG20A: view

Variants for HMG20A Gene

Sequence variations from dbSNP and Humsavar for HMG20A Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs1022172 -- 77,501,017(-) AGCCG(C/T)GAATT intron-variant
rs10519165 -- 77,429,767(+) AAGAC(A/G)TTCAT intron-variant
rs10519166 -- 77,430,126(+) ACATA(C/G)AAAAC intron-variant
rs10519167 -- 77,430,685(+) GTCAA(G/T)ATCCC intron-variant
rs10660461 -- 77,420,625(+) GCAAT(-/A)AAAAA upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for HMG20A Gene

Variant ID Type Subtype PubMed ID
esv2660058 CNV deletion 23128226
esv2749898 CNV deletion 23290073
esv3306898 CNV mobile element insertion 20981092
esv3362224 CNV insertion 20981092
esv3552706 CNV deletion 23714750
esv3636966 CNV loss 21293372
nsv1040852 CNV gain 25217958
nsv1043284 CNV gain 25217958
nsv1116463 OTHER inversion 24896259
nsv570139 CNV loss 21841781

Variation tolerance for HMG20A Gene

Residual Variation Intolerance Score: 31.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.58; 12.49% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HMG20A Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HMG20A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HMG20A Gene

Disorders for HMG20A Gene

Relevant External Links for HMG20A

Genetic Association Database (GAD)
HMG20A
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HMG20A

No disorders were found for HMG20A Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HMG20A Gene

Publications for HMG20A Gene

  1. HMG20A and HMG20B map to human chromosomes 15q24 and 19p13.3 and constitute a distinct class of HMG-box genes with ubiquitous expression. (PMID: 10773667) Sumoy L. … Peral B. (Cytogenet. Cell Genet. 2000) 2 3 4 64
  2. Transferability of type 2 diabetes implicated loci in multi-ethnic cohorts from Southeast Asia. (PMID: 21490949) Sim X. … Tai E.S. (PLoS Genet. 2011) 3 46 64
  3. Genome-wide association study in individuals of South Asian ancestry identifies six new type 2 diabetes susceptibility loci. (PMID: 21874001) Kooner J.S. … Chambers J.C. (Nat. Genet. 2011) 3 46 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for HMG20A Gene

Sources for HMG20A Gene

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