Variant report

Variant	rs351721
Chromosome Location	chr6:109551109-109551110
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:109541946..109544521-chr6:109546672..109551149,4	K562	blood:
2	chr6:109550138..109552372-chr6:109553343..109555002,4	K562	blood:
3	chr6:109540365..109541888-chr6:109549940..109552681,2	MCF-7	breast:
4	chr6:109550969..109552801-chr6:109556647..109559648,3	K562	blood:
5	chr6:109549799..109552597-chr6:109768682..109770308,2	K562	blood:
6	chr6:109551005..109552801-chr6:109556647..109559634,2	K562	blood:
7	chr6:109515007..109517664-chr6:109549539..109552383,3	MCF-7	breast:
8	chr6:109545979..109548369-chr6:109549835..109551371,2	K562	blood:
9	chr6:109550909..109553791-chr6:109560961..109563998,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000243587	Chromatin interaction

Extended variants
information (count: 87 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11153161	0.95[ASN][1000 genomes]
rs11153165	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs11153166	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs11153167	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs11153168	0.81[CEU][hapmap]
rs11964178	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1260593	0.83[CEU][hapmap]
rs12664455	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1271693	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13196590	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs13202939	0.82[CEU][hapmap]
rs13211313	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs13211944	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1741923	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2884036	0.82[CEU][hapmap]
rs34774766	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs351716	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351717	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351718	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351719	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]
rs351720	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351722	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351723	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351726	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];0.99[ASN][1000 genomes]
rs351727	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs351728	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs351730	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs351731	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs351732	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs351735	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs351736	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs351737	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351742	0.83[CEU][hapmap]
rs351744	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs351746	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs351747	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs351750	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs351751	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs353052	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs371960	0.83[CEU][hapmap]
rs377436	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs386696	0.84[CEU][hapmap]
rs388526	0.95[ASN][1000 genomes]
rs396635	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs399561	0.83[CEU][hapmap]
rs408944	0.96[ASN][1000 genomes]
rs410449	0.95[ASN][1000 genomes]
rs412754	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs418093	0.93[ASN][1000 genomes]
rs421790	0.95[ASN][1000 genomes]
rs422113	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs427960	0.83[CEU][hapmap]
rs429534	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4301336	0.82[CEU][hapmap]
rs436880	0.96[ASN][1000 genomes]
rs442405	0.84[CEU][hapmap]
rs446974	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs448496	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs449736	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs449850	0.83[CEU][hapmap]
rs4548045	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs455839	0.84[CEU][hapmap]
rs458185	0.84[CEU][hapmap]
rs458740	0.85[CEU][hapmap]
rs459956	0.83[CEU][hapmap]
rs461487	0.83[CEU][hapmap]
rs463503	0.86[CEU][hapmap]
rs463916	0.84[CEU][hapmap]
rs55677234	0.80[EUR][1000 genomes]
rs566164	0.90[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59673	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6919423	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs6925339	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7773490	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs830552	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs830554	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs830556	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9320278	0.99[ASN][1000 genomes]
rs9374076	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9384701	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9386774	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9386775	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9386779	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9400265	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9400276	0.82[CEU][hapmap]
rs9487049	0.81[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	nsv527657	chr6:109533385-109579675	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109546800-109557800	Weak transcription	Spleen	Spleen
2	chr6:109547000-109553200	Enhancers	Fetal Intestine Small	intestine
3	chr6:109547400-109551200	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr6:109547800-109553000	Enhancers	Stomach Mucosa	stomach
5	chr6:109549000-109551200	Weak transcription	Pancreas	Pancrea
6	chr6:109550000-109551800	Enhancers	Placenta	Placenta
7	chr6:109550000-109553000	Enhancers	Rectal Mucosa Donor 29	rectum
8	chr6:109550000-109553600	Enhancers	Duodenum Mucosa	Duodenum
9	chr6:109550000-109553600	Enhancers	Fetal Intestine Large	intestine
10	chr6:109550200-109551600	Enhancers	Hela-S3	cervix
11	chr6:109550200-109553600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:109550400-109551400	Enhancers	NHEK	skin
13	chr6:109550600-109551400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr6:109550600-109551600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:109550800-109551200	Enhancers	Muscle Satellite Cultured Cells	--
16	chr6:109550800-109551200	Enhancers	HSMMtube	muscle
17	chr6:109550800-109551400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr6:109550800-109551400	Enhancers	NHDF-Ad	bronchial
19	chr6:109550800-109551600	Enhancers	K562	blood
20	chr6:109551000-109551200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr6:109551000-109551200	Enhancers	Sigmoid Colon	Sigmoid Colon
22	chr6:109551000-109551400	Enhancers	Esophagus	oesophagus
23	chr6:109551000-109551400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
24	chr6:109551000-109552200	Enhancers	Adipose Nuclei	Adipose
25	chr6:109551000-109552200	Enhancers	HepG2	liver

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