Variant report

Variant	rs643557
Chromosome Location	chr6:81229775-81229776
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10943716	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10943717	0.96[EUR][1000 genomes]
rs10943718	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12200933	0.97[EUR][1000 genomes]
rs13212000	0.92[EUR][1000 genomes]
rs1657308	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1698340	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2168104	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2322840	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2322841	0.97[EUR][1000 genomes]
rs2503719	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2653481	0.86[EUR][1000 genomes]
rs2917599	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2917601	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4455626	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4481396	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4612123	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs484019	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs504505	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs559528	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs565531	1.00[YRI][hapmap];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs585401	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs591403	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs600262	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs607208	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs630692	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs632422	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs652200	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs668698	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs676224	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs682310	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7738465	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9443791	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9443797	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9449059	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9449060	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9449061	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9449063	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9449067	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9449068	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9449074	1.00[YRI][hapmap]
rs9449080	0.84[EUR][1000 genomes]
rs9449091	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531333	chr6:81042427-81836484	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1019670	chr6:81086504-81569984	ZNF genes & repeats Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv915714	chr6:81134888-81366749	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv886311	chr6:81166178-81239971	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv886312	chr6:81166178-81309481	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv886313	chr6:81177227-81239971	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:81226800-81230000	Weak transcription	Colon Smooth Muscle	Colon
2	chr6:81227000-81232800	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr6:81227200-81232600	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr6:81227600-81231800	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr6:81227600-81231800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr6:81227600-81231800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr6:81227600-81232800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr6:81227800-81232000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr6:81228000-81231800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr6:81229200-81231000	Enhancers	NHDF-Ad	bronchial
11	chr6:81229400-81229800	Enhancers	Rectal Smooth Muscle	rectum
12	chr6:81229400-81230400	Enhancers	Osteobl	bone
13	chr6:81229400-81230800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:81229600-81229800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr6:81229600-81230000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:81229600-81230200	Enhancers	HUVEC	blood vessel
17	chr6:81229600-81230400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr6:81229600-81230600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr6:81229600-81230600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:81229600-81230600	Enhancers	Muscle Satellite Cultured Cells	--
21	chr6:81229600-81230600	Enhancers	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links