Variant report

Variant	rs7643155
Chromosome Location	chr3:177622584-177622585
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1244565	0.80[ASN][1000 genomes]
rs13068181	0.82[EUR][1000 genomes]
rs1362826	0.82[EUR][1000 genomes]
rs1833405	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4349514	0.81[EUR][1000 genomes]
rs4453861	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4478092	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6443513	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6443514	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6443516	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6782448	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6786110	0.83[CHD][hapmap]
rs6801902	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6809579	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	nsv931055	chr3:177229521-177889872	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7643155	ATP11B	cis	parietal	SCAN

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:177581400-177622600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:177617800-177628000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:177620200-177624400	Enhancers	Fetal Brain Female	brain
4	chr3:177620600-177625200	Enhancers	NHLF	lung
5	chr3:177621200-177622800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr3:177621200-177623400	Enhancers	HSMM	muscle
7	chr3:177621200-177623800	Enhancers	Fetal Brain Male	brain
8	chr3:177621200-177625000	Enhancers	Fetal Kidney	kidney
9	chr3:177621400-177622600	Enhancers	Muscle Satellite Cultured Cells	--
10	chr3:177621400-177622600	Weak transcription	Colon Smooth Muscle	Colon
11	chr3:177621600-177622600	Weak transcription	Brain Germinal Matrix	brain
12	chr3:177621600-177623400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:177621600-177623600	Enhancers	Osteobl	bone
14	chr3:177621800-177625800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:177622000-177623000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr3:177622000-177623000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr3:177622000-177623200	Enhancers	Stomach Smooth Muscle	stomach
18	chr3:177622000-177625000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr3:177622000-177625000	Enhancers	NHDF-Ad	bronchial
20	chr3:177622000-177625400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr3:177622000-177625400	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr3:177622200-177622600	Weak transcription	Aorta	Aorta
23	chr3:177622200-177622600	Enhancers	NH-A	brain
24	chr3:177622200-177623000	Enhancers	Pancreas	Pancrea
25	chr3:177622200-177624200	Enhancers	Brain Angular Gyrus	brain
26	chr3:177622200-177625200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr3:177622400-177623400	Enhancers	HSMMtube	muscle
28	chr3:177622400-177624400	Enhancers	A549	lung
29	chr3:177622400-177624600	Enhancers	Rectal Smooth Muscle	rectum
30	chr3:177622400-177624800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr3:177622400-177624800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:177622400-177625000	Enhancers	HMEC	breast
33	chr3:177622400-177625200	Enhancers	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links