Variant report

Variant	rs631396
Chromosome Location	chr2:31507676-31507677
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:31504614..31506974-chr2:31507651..31509290,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1010477	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10175943	0.91[ASN][1000 genomes]
rs11124256	0.91[ASN][1000 genomes]
rs11683836	0.91[ASN][1000 genomes]
rs12988379	0.91[ASN][1000 genomes]
rs1474941	0.91[ASN][1000 genomes]
rs2145036	0.91[ASN][1000 genomes]
rs4366947	0.87[ASN][1000 genomes]
rs4951976	0.86[ASN][1000 genomes]
rs4951977	0.91[ASN][1000 genomes]
rs4952077	0.91[ASN][1000 genomes]
rs4952078	0.86[ASN][1000 genomes]
rs585805	0.82[EUR][1000 genomes]
rs586245	0.86[ASN][1000 genomes]
rs590009	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs598204	0.82[ASN][1000 genomes]
rs600236	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs602322	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs602771	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs603824	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs604986	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs635092	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs637911	0.91[ASN][1000 genomes]
rs644417	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs644736	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs646103	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs646200	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6543622	0.91[ASN][1000 genomes]
rs661015	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs674791	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs684967	0.82[ASN][1000 genomes]
rs7567147	0.86[ASN][1000 genomes]
rs7581173	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948552	chr2:31118599-31595424	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv949028	chr2:31502801-31665108	Flanking Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs631396	EHD3	cis	Esophagus Mucosa	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:31486600-31510000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr2:31492400-31507800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr2:31492800-31510600	Weak transcription	Aorta	Aorta
4	chr2:31495800-31509800	Weak transcription	Esophagus	oesophagus
5	chr2:31497000-31510400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr2:31504600-31512800	Enhancers	Placenta	Placenta
7	chr2:31505800-31508200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr2:31506200-31509000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr2:31506200-31510000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr2:31506400-31508400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr2:31506400-31508800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr2:31506400-31508800	Weak transcription	HUVEC	blood vessel
13	chr2:31507400-31511000	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr2:31507600-31507800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr2:31507600-31510200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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