Variant report

Variant	rs11597564
Chromosome Location	chr10:97659940-97659941
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97657059..97661839-chr10:97664974..97668888,4	K562	blood:
2	chr10:97654990..97656934-chr10:97659320..97661534,2	K562	blood:
3	chr10:97658556..97660502-chr10:97665504..97668137,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000173088	Chromatin interaction
ENSG00000226688	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11592937	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11594010	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11594340	1.00[AFR][1000 genomes]
rs11594853	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11595122	1.00[AFR][1000 genomes]
rs11596697	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11599779	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12761082	0.80[AMR][1000 genomes]
rs12770313	0.83[AFR][1000 genomes]
rs3181115	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34630379	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34833309	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34955155	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34963139	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35298116	0.80[AMR][1000 genomes]
rs35691144	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35700869	1.00[AFR][1000 genomes]
rs35864527	0.80[AMR][1000 genomes]
rs35968758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs36103691	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs66527979	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs66530311	0.80[AMR][1000 genomes]
rs66706740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs66751616	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs67166869	0.80[AMR][1000 genomes]
rs68078796	1.00[AFR][1000 genomes]
rs71482374	0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv895905	chr10:97513362-97686064	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv895906	chr10:97513362-97703650	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv895907	chr10:97529318-97686064	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv895908	chr10:97544513-97724247	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97621000-97666800	Weak transcription	Gastric	stomach
2	chr10:97622800-97666600	Weak transcription	Thymus	Thymus
3	chr10:97623800-97666600	Weak transcription	Right Ventricle	heart
4	chr10:97625400-97666400	Weak transcription	Osteobl	bone
5	chr10:97626400-97666400	Weak transcription	Pancreas	Pancrea
6	chr10:97628000-97666800	Weak transcription	Esophagus	oesophagus
7	chr10:97629200-97663000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr10:97631200-97663000	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr10:97632200-97660400	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr10:97632200-97667000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr10:97633400-97666600	Weak transcription	Brain Angular Gyrus	brain
12	chr10:97633800-97666600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr10:97633800-97666600	Weak transcription	Brain Hippocampus Middle	brain
14	chr10:97634000-97663200	Weak transcription	Spleen	Spleen
15	chr10:97634400-97666800	Weak transcription	Lung	lung
16	chr10:97634600-97666400	Weak transcription	Brain Germinal Matrix	brain
17	chr10:97634600-97666800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr10:97634800-97667000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr10:97635800-97666600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr10:97636400-97662600	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr10:97636400-97666400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr10:97636800-97666400	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr10:97638600-97666600	Weak transcription	Colonic Mucosa	Colon
24	chr10:97641200-97662800	Weak transcription	Rectal Smooth Muscle	rectum
25	chr10:97643200-97666600	Weak transcription	Fetal Heart	heart
26	chr10:97644600-97661400	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr10:97646600-97666400	Weak transcription	HSMM	muscle
28	chr10:97648000-97662600	Weak transcription	K562	blood
29	chr10:97648000-97666400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr10:97649400-97662400	Weak transcription	Stomach Smooth Muscle	stomach
31	chr10:97649400-97666600	Weak transcription	Fetal Intestine Large	intestine
32	chr10:97650000-97666600	Weak transcription	Fetal Intestine Small	intestine
33	chr10:97650200-97662600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr10:97651800-97666400	Weak transcription	A549	lung
35	chr10:97652200-97666400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr10:97652800-97662400	Weak transcription	Brain Substantia Nigra	brain
37	chr10:97652800-97662400	Weak transcription	Dnd41	blood
38	chr10:97653800-97666600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr10:97654000-97664800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr10:97654000-97665000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr10:97654200-97660600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr10:97654400-97664800	Strong transcription	HUES48 Cell Line	embryonic stem cell
43	chr10:97654400-97665000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr10:97654600-97663600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr10:97655000-97664400	Strong transcription	HUES64 Cell Line	embryonic stem cell
46	chr10:97655200-97660400	Strong transcription	Fetal Thymus	thymus
47	chr10:97655200-97660600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr10:97655200-97660600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr10:97655200-97666600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr10:97655800-97666600	Weak transcription	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links