Variant report

Variant	rs10988660
Chromosome Location	chr9:101805757-101805758
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:101796547..101799706-chr9:101804532..101807252,3	K562	blood:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10988595	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11789689	0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs11792253	1.00[CEU][hapmap];0.80[YRI][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12684344	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2075666	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3780621	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3824511	0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs60891605	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs949802	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];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs976240	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.88[EUR][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	nsv466442	chr9:101788522-101816399	ZNF genes & repeats Enhancers Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv614954	chr9:101788522-101816399	Strong transcription Genic enhancers Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv893618	chr9:101800106-101886071	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101761600-101814400	Weak transcription	Gastric	stomach
2	chr9:101782000-101819800	Weak transcription	Colonic Mucosa	Colon
3	chr9:101787200-101806400	Weak transcription	Ovary	ovary
4	chr9:101789000-101812000	Weak transcription	Esophagus	oesophagus
5	chr9:101793800-101837600	Weak transcription	Psoas Muscle	Psoas
6	chr9:101796200-101806400	Strong transcription	Stomach Smooth Muscle	stomach
7	chr9:101798200-101811400	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr9:101798400-101819800	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr9:101799200-101814600	Weak transcription	Pancreas	Pancrea
10	chr9:101800200-101806800	Weak transcription	Rectal Smooth Muscle	rectum
11	chr9:101801600-101806200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr9:101802400-101809200	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr9:101803200-101805800	Genic enhancers	Adipose Nuclei	Adipose
14	chr9:101803600-101806400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr9:101803600-101806400	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr9:101804000-101806000	Strong transcription	Fetal Muscle Leg	muscle
17	chr9:101804000-101806400	Strong transcription	Fetal Muscle Trunk	muscle
18	chr9:101804000-101809600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr9:101804000-101820000	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr9:101804200-101806200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr9:101804200-101806400	Weak transcription	Hela-S3	cervix
22	chr9:101804200-101806800	Weak transcription	Primary B cells from cord blood	blood
23	chr9:101804200-101809400	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr9:101804400-101806000	Weak transcription	Placenta	Placenta
25	chr9:101804400-101806000	Weak transcription	NHDF-Ad	bronchial
26	chr9:101804600-101809000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr9:101804800-101805800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr9:101805200-101805800	Enhancers	Right Atrium	heart
29	chr9:101805200-101805800	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr9:101805200-101806800	Strong transcription	Colon Smooth Muscle	Colon
31	chr9:101805200-101807400	ZNF genes & repeats	Fetal Stomach	stomach
32	chr9:101805400-101805800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr9:101805400-101805800	Enhancers	Right Ventricle	heart
34	chr9:101805400-101806000	Enhancers	Lung	lung
35	chr9:101805400-101806600	Enhancers	Left Ventricle	heart
36	chr9:101805400-101806800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr9:101805600-101806000	ZNF genes & repeats	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links