Variant report

Variant	rs10008963
Chromosome Location	chr4:88378715-88378716
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:88345779..88348484-chr4:88376364..88379281,2	K562	blood:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10009776	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10015443	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10017282	0.90[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.93[GIH][hapmap];0.81[JPT][hapmap];0.86[LWK][hapmap];0.81[MKK][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10034240	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10213468	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11097151	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13119798	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13122902	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28439403	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4388049	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6531987	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6531988	1.00[CEU][hapmap];0.84[CHB][hapmap];0.85[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6531994	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6531995	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6531997	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67796586	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6816136	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6847168	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7666886	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7673045	1.00[CEU][hapmap];0.82[CHB][hapmap];0.80[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7695235	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9307036	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9968511	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1002789	chr4:88239340-88606485	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1011882	chr4:88363959-88402477	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:88344400-88398600	Weak transcription	Gastric	stomach
2	chr4:88345200-88400000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr4:88345200-88416400	Weak transcription	Colonic Mucosa	Colon
4	chr4:88345400-88378800	Weak transcription	A549	lung
5	chr4:88346200-88382600	Weak transcription	NHLF	lung
6	chr4:88346400-88379400	Weak transcription	Small Intestine	intestine
7	chr4:88346600-88410400	Weak transcription	Esophagus	oesophagus
8	chr4:88349400-88381800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr4:88350600-88380600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr4:88351200-88379000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr4:88351400-88382400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr4:88351600-88414600	Weak transcription	Psoas Muscle	Psoas
13	chr4:88352600-88387200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr4:88354800-88381600	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr4:88356600-88382000	Weak transcription	Brain Germinal Matrix	brain
16	chr4:88357600-88380000	Weak transcription	Brain Angular Gyrus	brain
17	chr4:88357800-88381600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr4:88359800-88382200	Weak transcription	Fetal Brain Female	brain
19	chr4:88360400-88381800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr4:88361200-88383000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr4:88363400-88380600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr4:88364400-88379000	Weak transcription	Brain Substantia Nigra	brain
23	chr4:88364800-88382800	Weak transcription	HMEC	breast
24	chr4:88365000-88380800	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr4:88365000-88403400	Weak transcription	Right Ventricle	heart
26	chr4:88365200-88381800	Weak transcription	HUVEC	blood vessel
27	chr4:88366000-88381400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr4:88366600-88379000	Weak transcription	Fetal Kidney	kidney
29	chr4:88366600-88382400	Weak transcription	Fetal Heart	heart
30	chr4:88367400-88380800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr4:88367400-88381600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr4:88370200-88380200	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr4:88371800-88381800	Weak transcription	Thymus	Thymus
34	chr4:88372600-88379000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr4:88372600-88379000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr4:88372600-88379000	Weak transcription	K562	blood
37	chr4:88372600-88381000	Weak transcription	NHDF-Ad	bronchial
38	chr4:88372600-88382600	Weak transcription	NHEK	skin
39	chr4:88372600-88398800	Weak transcription	Lung	lung
40	chr4:88372800-88379000	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr4:88372800-88379000	Weak transcription	NH-A	brain
42	chr4:88372800-88386400	Weak transcription	HSMM	muscle
43	chr4:88372800-88398800	Weak transcription	Brain Anterior Caudate	brain
44	chr4:88373000-88382000	Weak transcription	Hela-S3	cervix
45	chr4:88373800-88379000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr4:88373800-88379000	Weak transcription	Primary B cells from cord blood	blood
47	chr4:88373800-88379000	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr4:88373800-88379400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr4:88373800-88380600	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr4:88373800-88386200	Weak transcription	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links