Variant report

Variant	rs10819640
Chromosome Location	chr9:101903940-101903941
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101901991..101903988-chr9:101906296..101908227,2	MCF-7	breast:
2	chr9:101898521..101900717-chr9:101901631..101904454,3	K562	blood:
3	chr9:101762444..101763486-chr9:101902217..101903969,25	MCF-7	breast:
4	chr9:101865858..101869567-chr9:101901452..101906002,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106799	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10733708	0.82[ASN][1000 genomes]
rs10733709	0.91[CHB][hapmap];0.89[ASN][1000 genomes]
rs10739778	0.81[ASN][1000 genomes]
rs10760668	0.92[ASN][1000 genomes]
rs10760669	0.94[ASN][1000 genomes]
rs10760670	0.82[ASN][1000 genomes]
rs10760671	1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs10760672	1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs10760673	1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[ASN][1000 genomes]
rs10760674	0.89[ASN][1000 genomes]
rs10819636	0.94[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10819638	1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs10988706	1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs10988709	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10988713	0.83[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10988715	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10988716	1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs10988717	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10988723	0.89[ASN][1000 genomes]
rs11568752	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11568753	0.87[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11568770	0.91[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11568778	0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12346650	0.95[CHB][hapmap];0.87[CHD][hapmap]
rs12685571	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12686782	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1571589	0.82[ASN][1000 genomes]
rs1590	0.80[ASN][1000 genomes]
rs1699413	0.91[ASN][1000 genomes]
rs1888225	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1973518	0.89[ASN][1000 genomes]
rs2026811	0.81[ASN][1000 genomes]
rs334348	0.80[ASN][1000 genomes]
rs334349	0.80[ASN][1000 genomes]
rs334351	0.94[ASN][1000 genomes]
rs334353	1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[ASN][1000 genomes]
rs334354	1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[ASN][1000 genomes]
rs334355	0.81[ASN][1000 genomes]
rs334362	0.89[ASN][1000 genomes]
rs334363	0.90[ASN][1000 genomes]
rs334364	0.90[ASN][1000 genomes]
rs334366	0.90[ASN][1000 genomes]
rs334367	0.90[ASN][1000 genomes]
rs334370	0.88[ASN][1000 genomes]
rs3739798	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3780619	1.00[LWK][hapmap]
rs44466	0.86[ASN][1000 genomes]
rs597457	1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs6478972	0.82[ASN][1000 genomes]
rs6478973	0.94[ASN][1000 genomes]
rs7031302	0.82[ASN][1000 genomes]
rs7031309	0.82[ASN][1000 genomes]
rs7041311	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs7042852	0.91[CHB][hapmap];0.88[CHD][hapmap];0.89[ASN][1000 genomes]
rs7043624	0.82[CHB][hapmap];0.81[ASN][1000 genomes]
rs7874221	1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893619	chr9:101835165-101936231	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv831666	chr9:101874985-102018690	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	esv1792736	chr9:101891126-101909372	Flanking Active TSS Strong transcription Enhancers Genic enhancers Weak transcription Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101870000-101908600	Weak transcription	Brain Germinal Matrix	brain
2	chr9:101876600-101904200	Weak transcription	Liver	Liver
3	chr9:101888200-101907000	Weak transcription	HepG2	liver
4	chr9:101889400-101904000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr9:101889800-101904400	Weak transcription	Lung	lung
6	chr9:101890000-101914200	Weak transcription	Pancreas	Pancrea
7	chr9:101890200-101904800	Weak transcription	Fetal Intestine Large	intestine
8	chr9:101890200-101907600	Weak transcription	Gastric	stomach
9	chr9:101890400-101908400	Weak transcription	Hela-S3	cervix
10	chr9:101890600-101907000	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr9:101890600-101908800	Weak transcription	Right Ventricle	heart
12	chr9:101892600-101914200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:101892800-101905800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr9:101892800-101921000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:101893000-101904200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr9:101894200-101906800	Weak transcription	Fetal Kidney	kidney
17	chr9:101894200-101907600	Weak transcription	HUVEC	blood vessel
18	chr9:101895000-101907200	Weak transcription	Spleen	Spleen
19	chr9:101895000-101914200	Weak transcription	Esophagus	oesophagus
20	chr9:101895400-101904200	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr9:101897600-101907400	Weak transcription	HMEC	breast
22	chr9:101897600-101913400	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr9:101897600-101915400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr9:101897800-101906800	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr9:101898000-101904800	Weak transcription	Fetal Brain Female	brain
26	chr9:101898000-101905400	Weak transcription	NH-A	brain
27	chr9:101898000-101907000	Weak transcription	NHLF	lung
28	chr9:101898000-101907200	Weak transcription	Small Intestine	intestine
29	chr9:101898000-101907400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr9:101898000-101907400	Weak transcription	Brain Angular Gyrus	brain
31	chr9:101898000-101907400	Weak transcription	Brain Hippocampus Middle	brain
32	chr9:101898000-101907400	Weak transcription	Brain Substantia Nigra	brain
33	chr9:101898000-101912200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr9:101898000-101919400	Weak transcription	Brain Cingulate Gyrus	brain
35	chr9:101898200-101906000	Weak transcription	Fetal Brain Male	brain
36	chr9:101898400-101905000	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr9:101899000-101906800	Weak transcription	Fetal Thymus	thymus
38	chr9:101899000-101913000	Strong transcription	HSMM	muscle
39	chr9:101899400-101908000	Weak transcription	Colonic Mucosa	Colon
40	chr9:101899400-101913000	Weak transcription	Thymus	Thymus
41	chr9:101900000-101905800	Weak transcription	GM12878-XiMat	blood
42	chr9:101900200-101914800	Strong transcription	Primary B cells from peripheral blood	blood
43	chr9:101900200-101915200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr9:101900400-101904000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr9:101900800-101916800	Strong transcription	Primary neutrophils fromperipheralblood	blood
46	chr9:101901000-101904000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr9:101901000-101905800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr9:101901200-101905800	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr9:101901200-101908000	Weak transcription	Psoas Muscle	Psoas
50	chr9:101901400-101904200	Weak transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links