Variant report

Variant	rs7656543
Chromosome Location	chr4:26576800-26576801
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10014273	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs10031954	0.81[ASN][1000 genomes]
rs10470786	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10805265	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10939130	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11737510	0.81[ASN][1000 genomes]
rs13117759	0.81[ASN][1000 genomes]
rs13133205	0.80[ASN][1000 genomes]
rs13353547	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1387541	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1641558	0.87[ASN][1000 genomes]
rs1641560	0.85[ASN][1000 genomes]
rs1641561	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1686374	0.89[ASN][1000 genomes]
rs1686383	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs16878551	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1994551	0.92[CHD][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs2309411	0.87[ASN][1000 genomes]
rs2309414	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs260941	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs260942	1.00[CHB][hapmap];0.81[JPT][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs260944	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs260947	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs260951	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs260954	0.93[ASN][1000 genomes]
rs260955	1.00[CHB][hapmap];0.92[CHD][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28420370	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28474372	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4235020	0.81[ASN][1000 genomes]
rs4416469	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[ASN][1000 genomes]
rs6831895	0.81[ASN][1000 genomes]
rs6833757	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6857426	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73114606	0.87[ASN][1000 genomes]
rs73114608	0.98[ASN][1000 genomes]
rs7670323	0.81[ASN][1000 genomes]
rs7672066	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs7690923	0.81[ASN][1000 genomes]
rs9997756	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9997999	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2762417	chr4:26491768-26576800	Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7656543	GATA3	trans	lymphoblastoid	seeQTL

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26570800-26578000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr4:26571000-26577200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr4:26571000-26577200	Weak transcription	NHDF-Ad	bronchial
4	chr4:26571000-26577200	Weak transcription	NHLF	lung
5	chr4:26571000-26577200	Weak transcription	Osteobl	bone
6	chr4:26572000-26585000	Weak transcription	K562	blood
7	chr4:26573600-26577200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr4:26574800-26578000	Enhancers	Muscle Satellite Cultured Cells	--
9	chr4:26575000-26578000	Enhancers	NH-A	brain
10	chr4:26575200-26577200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr4:26575200-26578000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr4:26575200-26578200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr4:26575200-26585200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr4:26575400-26577400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr4:26575400-26578200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr4:26575600-26577600	Weak transcription	HSMMtube	muscle
17	chr4:26576400-26576800	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr4:26576400-26578000	Weak transcription	Fetal Thymus	thymus
19	chr4:26576600-26577000	Weak transcription	HSMM	muscle
20	chr4:26576600-26582000	Weak transcription	Thymus	Thymus

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