Variant report

Variant	rs10769873
Chromosome Location	chr11:8157610-8157611
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10431030	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10769869	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10769874	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10769876	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10769878	0.94[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10839976	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10839982	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10839984	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10839985	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10839988	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11041742	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11041757	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11041773	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11607166	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12799778	0.81[CHB][hapmap]
rs2242501	0.85[CEU][hapmap]
rs2242502	0.85[CEU][hapmap]
rs3750955	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4331082	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4340037	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4343012	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4384376	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4397840	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4497397	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7110509	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7941531	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][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	esv1829170	chr11:8068594-8216369	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv428249	chr11:8068594-8216369	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1048537	chr11:8137353-8196203	Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv896981	chr11:8152080-8227964	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1054339	chr11:8153582-8263173	Bivalent Enhancer Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8126400-8160600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr11:8128800-8162600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr11:8132400-8159600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr11:8132600-8158000	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr11:8132600-8160800	Weak transcription	Esophagus	oesophagus
6	chr11:8132600-8172200	Weak transcription	Pancreas	Pancrea
7	chr11:8133600-8157800	Weak transcription	Stomach Smooth Muscle	stomach
8	chr11:8133600-8162800	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr11:8146600-8157800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr11:8148400-8157800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr11:8148400-8169200	Weak transcription	Brain Anterior Caudate	brain
12	chr11:8148800-8170200	Weak transcription	Colon Smooth Muscle	Colon
13	chr11:8149400-8162200	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr11:8149800-8157800	Weak transcription	Brain Cingulate Gyrus	brain
15	chr11:8149800-8179600	Weak transcription	Brain Substantia Nigra	brain
16	chr11:8150200-8157800	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr11:8150800-8162600	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr11:8152200-8162400	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr11:8155200-8159400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr11:8155200-8166800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr11:8155400-8160200	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr11:8155800-8163600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr11:8156000-8189800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr11:8156200-8160800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr11:8156400-8159200	Weak transcription	HMEC	breast
26	chr11:8156400-8163200	Weak transcription	Rectal Smooth Muscle	rectum
27	chr11:8156600-8159200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr11:8156600-8163600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr11:8157200-8157800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
30	chr11:8157200-8158000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr11:8157200-8158200	Strong transcription	Primary T helper cells PMA-I stimulated	--
32	chr11:8157200-8158200	Strong transcription	Brain Hippocampus Middle	brain
33	chr11:8157200-8159400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr11:8157200-8160800	Strong transcription	ES-I3 Cell Line	embryonic stem cell
35	chr11:8157200-8160800	Strong transcription	HUES64 Cell Line	embryonic stem cell
36	chr11:8157200-8161400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr11:8157200-8162000	Strong transcription	Primary B cells from peripheral blood	blood
38	chr11:8157400-8158400	Strong transcription	H1 Cell Line	embryonic stem cell
39	chr11:8157400-8159200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr11:8157400-8160800	Strong transcription	Primary T helper cells fromperipheralblood	blood
41	chr11:8157600-8157800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr11:8157600-8157800	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr11:8157600-8157800	ZNF genes & repeats	Ovary	ovary
44	chr11:8157600-8158000	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr11:8157600-8158000	Enhancers	Brain Germinal Matrix	brain
46	chr11:8157600-8158200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
47	chr11:8157600-8158200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr11:8157600-8158200	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
49	chr11:8157600-8158200	ZNF genes & repeats	Aorta	Aorta
50	chr11:8157600-8158200	Strong transcription	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links