Variant report

Variant	rs3752645
Chromosome Location	chr7:106782683-106782684
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:106782272..106785008-chr7:106808286..106810216,2	MCF-7	breast:
2	chr7:106780093..106782800-chr7:107098466..107101440,2	K562	blood:
3	chr7:106781336..106783880-chr7:106809504..106811989,2	K562	blood:

Variant related genes	Relation type
ENSG00000105856	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs1004570	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10232542	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10241141	0.86[ASN][1000 genomes]
rs10241155	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10248105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10249866	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10253172	0.81[ASN][1000 genomes]
rs10253291	0.81[ASN][1000 genomes]
rs10261881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10271426	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10272371	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11509187	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11760261	1.00[YRI][hapmap]
rs11760966	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11762123	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11764389	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11767623	0.81[ASN][1000 genomes]
rs11767753	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11772066	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12055946	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12154324	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12705405	0.81[ASN][1000 genomes]
rs17153823	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17153861	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17340358	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17340479	0.85[EUR][1000 genomes]
rs17340577	0.89[CEU][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17341680	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17425839	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1860804	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1860805	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1981696	1.00[CHD][hapmap];0.81[ASN][1000 genomes]
rs2041525	0.84[EUR][1000 genomes]
rs2041526	0.84[EUR][1000 genomes]
rs2191917	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2237653	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2250121	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2536490	0.80[CEU][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap]
rs257371	0.81[ASN][1000 genomes]
rs257372	0.81[ASN][1000 genomes]
rs257373	0.81[ASN][1000 genomes]
rs257375	0.81[ASN][1000 genomes]
rs257377	0.88[CHD][hapmap];0.81[ASN][1000 genomes]
rs257378	0.81[ASN][1000 genomes]
rs257379	0.81[ASN][1000 genomes]
rs257381	0.81[ASN][1000 genomes]
rs257382	0.81[ASN][1000 genomes]
rs257385	0.81[ASN][1000 genomes]
rs257386	0.81[ASN][1000 genomes]
rs257387	1.00[CHD][hapmap];0.81[ASN][1000 genomes]
rs28610544	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28873708	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3729876	1.00[CHD][hapmap];0.81[ASN][1000 genomes]
rs3729877	0.88[CHD][hapmap];0.81[ASN][1000 genomes]
rs3779500	1.00[CHD][hapmap];0.81[ASN][1000 genomes]
rs4460293	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56704102	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs58386564	0.84[EUR][1000 genomes]
rs58979869	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6466160	0.81[ASN][1000 genomes]
rs6946931	1.00[CHD][hapmap];0.81[ASN][1000 genomes]
rs6947857	0.81[ASN][1000 genomes]
rs6960708	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6971393	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6977868	0.81[ASN][1000 genomes]
rs6978486	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7778076	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7780728	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7780784	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7780830	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7786296	0.86[ASN][1000 genomes]
rs7786692	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8180787	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9641372	0.80[EUR][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	nsv831087	chr7:106673465-106872460	Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Bladder cancer (smoking interaction)	24662972	GWAS catalog

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:106760400-106808400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr7:106763000-106807800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr7:106767400-106797600	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr7:106773200-106786800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr7:106778400-106807800	Weak transcription	Brain Germinal Matrix	brain
6	chr7:106778800-106782800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr7:106779800-106790800	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr7:106780000-106787000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr7:106780000-106807800	Weak transcription	Fetal Heart	heart
10	chr7:106780200-106787800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr7:106780200-106792000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr7:106780200-106792200	Weak transcription	Fetal Brain Female	brain
13	chr7:106781400-106783800	Strong transcription	K562	blood
14	chr7:106782000-106783800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr7:106782000-106788000	Weak transcription	HUVEC	blood vessel
16	chr7:106782000-106795400	Weak transcription	Pancreas	Pancrea
17	chr7:106782400-106782800	Enhancers	H1 Cell Line	embryonic stem cell
18	chr7:106782400-106782800	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr7:106782400-106782800	Genic enhancers	Fetal Stomach	stomach
20	chr7:106782400-106784200	Strong transcription	Adipose Nuclei	Adipose
21	chr7:106782400-106788200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr7:106782600-106782800	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr7:106782600-106783200	Enhancers	Duodenum Smooth Muscle	Duodenum
24	chr7:106782600-106808000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links