Variant report

Variant	rs11235088
Chromosome Location	chr11:87018533-87018534
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10792942	0.86[CEU][hapmap]
rs10792943	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10792944	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10898662	0.90[AFR][1000 genomes]
rs10898667	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10898669	0.92[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10898673	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10898674	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10898675	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10898677	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11235084	0.90[AFR][1000 genomes]
rs11235085	0.90[AFR][1000 genomes]
rs11235087	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11235104	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11235106	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11235107	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11235109	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11604458	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12272915	0.90[AFR][1000 genomes]
rs12276145	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12279942	0.90[AFR][1000 genomes]
rs12281655	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12294015	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12295057	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12361047	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12363349	0.88[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12363892	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12790362	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2186727	0.89[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4536247	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4944698	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4944700	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4944701	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7125381	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043562	chr11:86755535-87547185	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv541120	chr11:86755535-87547185	Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv1046288	chr11:86757573-87158571	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv1045057	chr11:86794670-87033779	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv541121	chr11:86794670-87033779	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv2829956	chr11:86872504-87025059	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv898074	chr11:86963330-87034696	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86992600-87020600	Weak transcription	Liver	Liver
2	chr11:86995200-87018800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr11:87004000-87032600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr11:87006400-87030600	Weak transcription	Dnd41	blood
5	chr11:87010200-87037200	Weak transcription	Fetal Muscle Trunk	muscle
6	chr11:87010600-87036800	Weak transcription	Psoas Muscle	Psoas
7	chr11:87011800-87024000	Weak transcription	Fetal Brain Female	brain
8	chr11:87011800-87036800	Weak transcription	Primary B cells from cord blood	blood
9	chr11:87012000-87024600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr11:87012000-87032200	Weak transcription	Duodenum Mucosa	Duodenum
11	chr11:87012000-87034200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr11:87012000-87040400	Weak transcription	Fetal Intestine Small	intestine
13	chr11:87012200-87020400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr11:87012400-87030400	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr11:87012400-87032200	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr11:87012600-87019200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr11:87012600-87019400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr11:87012600-87030200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr11:87012600-87031000	Weak transcription	Primary T cells from cord blood	blood
20	chr11:87012600-87032200	Weak transcription	Brain Anterior Caudate	brain
21	chr11:87012600-87032200	Weak transcription	Fetal Intestine Large	intestine
22	chr11:87012600-87036000	Weak transcription	Fetal Muscle Leg	muscle
23	chr11:87012600-87036400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr11:87012800-87044200	Weak transcription	Brain Hippocampus Middle	brain
25	chr11:87013200-87024000	Weak transcription	Esophagus	oesophagus
26	chr11:87013200-87025600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr11:87013200-87032400	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr11:87013200-87034400	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr11:87013400-87021200	Weak transcription	HSMMtube	muscle
30	chr11:87013400-87032200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr11:87013400-87032200	Weak transcription	Primary T cells fromperipheralblood	blood
32	chr11:87013400-87032200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr11:87013800-87032800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr11:87013800-87033000	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr11:87014000-87032200	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr11:87014200-87020400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr11:87014200-87034000	Weak transcription	HUES48 Cell Line	embryonic stem cell
38	chr11:87014400-87047400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr11:87015000-87021600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr11:87015600-87039800	Weak transcription	Fetal Stomach	stomach
41	chr11:87015800-87020600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr11:87015800-87028800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr11:87015800-87040800	Weak transcription	Left Ventricle	heart
44	chr11:87016000-87022000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr11:87016000-87030000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr11:87016000-87030600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr11:87016400-87034800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr11:87017400-87018600	Enhancers	Adipose Nuclei	Adipose
49	chr11:87017400-87033000	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr11:87017600-87032800	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links