Gene Report

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Basic Info

Approved Symbol	HMG20A
Symbol Alias	HMGX1, FLJ10739, HMGXB1
Approved Name	high mobility group 20A
Previous Name	high-mobility group 20A
Name Alias	HMG box domain containing 1
Location	15q24
Position	chr15:77420412-77485607, 1
External Links	HGNC: 5001 Entrez Gene: 10363 Ensembl: ENSG00000140382 UCSC: uc002bcr.3
No. of Studies	1 (Positive: 1; Negative: 0; trend: 0)
Overlap with SZ?	YES
Overlap with MDD?	NO

Gene related studies (count: 1)

Reference	Tested Markers	Statistical Values/Author Comments	Result Category	Comment on Study
Kajio, Y., 2014	SNP: rs7178572	The BD associations exhibited nominal significance for SNPs in BCL11A (rs243021, Puncorrected=0.0031) and HMG20A (rs7178572, Puncorrected=0.0043),	Positive	Comment on Study

Gene functional annotation

Gene related GO terms (count: 12)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0003677	DNA binding	molecular function	NAS[10773667]	83
GO:0003700	sequence-specific DNA binding transcription factor activity	molecular function	NAS[10773667]	66
GO:0005634	nucleus	cellular component	NAS[10773667]	283

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0006355	regulation of transcription, DNA-templated	biological process	NAS[10773667]	62
GO:0046982	protein heterodimerization activity	molecular function	IEA	42
GO:0003682	chromatin binding	molecular function	IBA	23
GO:0000122	negative regulation of transcription from RNA polymerase II promoter	biological process	IEA	62
GO:0006351	transcription, DNA-templated	biological process	IEA	103
GO:0006325	chromatin organization	biological process	NAS[10773667]	14
GO:0005515	protein binding	molecular function	IPI[16189514]	563
GO:0045665	negative regulation of neuron differentiation	biological process	IEA	8
GO:0006338	chromatin remodeling	biological process	IBA	8

Gene related KEGG pathways (count: 0)

Gene related BioCarta pathways (count: 0)

Gene related interactors from protein-protein interactions data in HPRD (count: 7)

Gene	Interactor	Interactor in BDgene?	Experiment Type	PMID
HMG20A	TESC	NO	yeast 2-hybrid	16189514
HMG20A	RBM7	NO	yeast 2-hybrid	16189514
HMG20A	MAGOHB	NO	yeast 2-hybrid	16189514
HMG20A	HPCAL1	NO	yeast 2-hybrid	16189514
HMG20A	SMAD4	NO	yeast 2-hybrid	15231748
HMG20A	CCNK	NO	yeast 2-hybrid	16189514
HMG20A	DTNB	NO	yeast 2-hybrid	16189514

Related other genetic factors

Gene related SNPs (count: 11)

rs_ID	Location	Functional Annotation	No. of Studies (Positive/Negative/Trend)
rs7178572	chr15:77454848 - 77454848(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	1(1/0/0)

rs_ID	Location	Functional Annotation
rs12910361	chr15:77489993 - 77489993(1)	downstream_gene_variant; upstream_gene_variant
rs965480	chr15:77489584 - 77489584(1)	downstream_gene_variant; upstream_gene_variant
rs12324627	chr15:77475197 - 77475197(1)	downstream_gene_variant; intron_variant; upstream_gene_variant
rs6495240	chr15:77474214 - 77474214(1)	downstream_gene_variant; intron_variant; upstream_gene_variant
rs8034133	chr15:77471370 - 77471370(1)	downstream_gene_variant; intron_variant
rs8024485	chr15:77426026 - 77426026(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs1565756	chr15:77449298 - 77449298(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs11633054	chr15:77454934 - 77454934(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant
rs2055901	chr15:77466953 - 77466953(1)	downstream_gene_variant; intron_variant; NMD_transcript_variant
rs34591043	chr15:77421244 - 77421244(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant

Gene related CNVs (count: 1)

ID	Location	Size	Band	Type	Inheritance
CNV_Zhang[2009]_266	chr15:74682831-76002735 (Affymetrix SNP 6.0 array reference genome)	1319904		Singleton deletions

Gene related other variants (count: 0)

Gene related regions (count: 2)

Region Name	Position	No. of Studies (Positive/Negative/Trend)
15q24.1-25.2	chr15:72400000-84700000	1 (0/1/0)
Chr 15	chr15:0-101991189	2 (0/2/0)

Overlap with schizophrenia (SZ) and major depressive disorder (MDD)

Gene relationship with SZ

Reference	Description	Result Category
24196380	No association was found for SNPs in this gene for SZ.	Negative

Gene relationship with MDD

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Region: chr15:77420412..77485607 View in gBrowse