Variant report

Variant	rs286809
Chromosome Location	chr5:107458637-107458638
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs12515105	0.86[CHB][hapmap]
rs12523367	0.86[CHB][hapmap]
rs13153782	0.84[TSI][hapmap]
rs13173916	0.84[TSI][hapmap]
rs149457	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs15158	1.00[CEU][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs158173	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs158175	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs158186	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs158283	1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs158285	0.90[EUR][1000 genomes]
rs158604	0.84[CEU][hapmap]
rs158605	0.84[CEU][hapmap]
rs158606	0.83[CEU][hapmap];0.84[TSI][hapmap]
rs158609	0.84[CEU][hapmap];0.90[TSI][hapmap]
rs17161080	0.85[CHB][hapmap]
rs17161232	0.83[TSI][hapmap]
rs17385448	0.84[TSI][hapmap]
rs1849012	0.84[TSI][hapmap]
rs185361	0.83[EUR][1000 genomes]
rs188274	0.86[EUR][1000 genomes]
rs286741	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs286743	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs286744	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs286749	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.87[EUR][1000 genomes]
rs286750	0.91[CEU][hapmap];0.84[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap];0.93[TSI][hapmap];0.86[EUR][1000 genomes]
rs286753	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs286771	0.83[CEU][hapmap]
rs286776	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs286777	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs286779	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs286781	0.90[EUR][1000 genomes]
rs286802	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs286818	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs288131	1.00[CEU][hapmap];0.85[CHB][hapmap];0.85[JPT][hapmap];0.96[TSI][hapmap];0.85[EUR][1000 genomes]
rs288139	0.85[CHB][hapmap];0.81[JPT][hapmap]
rs288143	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[CHD][hapmap];0.91[JPT][hapmap];0.96[TSI][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs288144	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.96[TSI][hapmap];0.85[EUR][1000 genomes]
rs288145	0.85[CHB][hapmap];0.81[JPT][hapmap]
rs288146	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs288147	0.85[CHB][hapmap];0.81[JPT][hapmap]
rs288149	0.85[EUR][1000 genomes]
rs288151	0.85[EUR][1000 genomes]
rs288152	0.85[EUR][1000 genomes]
rs288154	1.00[CEU][hapmap];0.80[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes]
rs288157	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.85[EUR][1000 genomes]
rs288161	1.00[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs288164	1.00[CEU][hapmap];0.84[CHB][hapmap];0.86[JPT][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes]
rs288168	0.83[EUR][1000 genomes]
rs288169	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap];0.83[EUR][1000 genomes]
rs288171	1.00[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs288172	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.89[TSI][hapmap];0.81[EUR][1000 genomes]
rs288173	1.00[CEU][hapmap];0.83[TSI][hapmap]
rs288180	1.00[CEU][hapmap];0.84[CHB][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap]
rs288183	0.81[JPT][hapmap]
rs288228	0.85[CHB][hapmap];0.91[JPT][hapmap]
rs288230	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs288232	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs288233	0.83[CEU][hapmap];0.84[EUR][1000 genomes]
rs288237	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs288238	0.88[EUR][1000 genomes]
rs289227	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[CHD][hapmap];0.81[JPT][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs289228	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.87[EUR][1000 genomes]
rs289230	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs2900122	0.83[CEU][hapmap]
rs2941697	0.84[TSI][hapmap]
rs2966832	0.84[TSI][hapmap]
rs34383	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34388	0.84[CEU][hapmap]
rs34414	0.84[TSI][hapmap]
rs34415	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34420	0.83[TSI][hapmap]
rs34422	0.83[CEU][hapmap]
rs34423	0.91[CEU][hapmap]
rs34424	0.91[CEU][hapmap];0.83[MKK][hapmap];0.87[TSI][hapmap];0.84[EUR][1000 genomes]
rs34427	0.91[CEU][hapmap];0.81[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.87[TSI][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34428	0.91[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.91[MKK][hapmap];0.87[TSI][hapmap];0.88[YRI][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34432	0.91[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs370216	0.85[EUR][1000 genomes]
rs372894	0.85[EUR][1000 genomes]
rs40067	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs40070	0.91[CEU][hapmap];0.82[YRI][hapmap];0.85[EUR][1000 genomes]
rs40071	0.91[CEU][hapmap];0.86[YRI][hapmap];0.85[EUR][1000 genomes]
rs41129	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41131	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs457378	0.91[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[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	nsv534281	chr5:107357579-107674981	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv830441	chr5:107450392-107614557	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107388400-107510800	Weak transcription	Primary B cells from cord blood	blood
2	chr5:107437800-107463800	Weak transcription	Esophagus	oesophagus
3	chr5:107449000-107467200	Weak transcription	Aorta	Aorta
4	chr5:107451800-107459200	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr5:107457000-107459600	Weak transcription	Fetal Intestine Small	intestine
6	chr5:107457800-107460000	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr5:107458200-107459000	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr5:107458400-107458800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr5:107458400-107458800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr5:107458400-107458800	Enhancers	NHDF-Ad	bronchial
11	chr5:107458400-107459000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr5:107458400-107459000	Enhancers	Pancreatic Islets	Pancreatic Islet
13	chr5:107458400-107459200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr5:107458400-107459800	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr5:107458400-107459800	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr5:107458400-107460200	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr5:107458400-107460600	Enhancers	iPS-20b Cell Line	embryonic stem cell
18	chr5:107458600-107459200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
19	chr5:107458600-107460600	Enhancers	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links