Variant report

Variant	rs2888903
Chromosome Location	chr11:85854176-85854177
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:85817821..85819843-chr11:85853370..85855067,2	K562	blood:
2	chr11:85843188..85845869-chr11:85853457..85855853,3	K562	blood:
3	chr11:85843188..85847457-chr11:85851977..85855853,7	K562	blood:
4	chr11:85853396..85856264-chr11:85887002..85888744,3	K562	blood:
5	chr11:85849556..85851508-chr11:85853899..85856057,2	K562	blood:
6	chr11:85852725..85854278-chr11:85855856..85858285,2	MCF-7	breast:
7	chr11:85853323..85855104-chr11:85891791..85893559,2	K562	blood:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10751134	0.85[CEU][hapmap];0.81[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.81[TSI][hapmap]
rs10792830	0.87[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap]
rs10792831	0.89[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10792832	0.87[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10898438	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10898439	0.89[CEU][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10898440	0.87[ASN][1000 genomes]
rs11234555	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11234556	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1898895	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs2028338	0.82[ASN][1000 genomes]
rs2508692	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs2508696	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs3016786	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs3844143	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3851178	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3851179	0.87[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3915642	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs471470	0.80[ASN][1000 genomes]
rs475639	0.82[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs484154	0.81[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs493254	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs4944560	0.93[ASW][hapmap];0.96[CEU][hapmap];0.87[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs497816	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs519961	0.81[ASN][1000 genomes]
rs526904	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs532470	0.82[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs542126	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs545592	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs561646	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs573167	0.80[ASN][1000 genomes]
rs602222	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs609903	0.82[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs613222	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs629343	0.91[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap]
rs631611	0.82[EUR][1000 genomes]
rs645299	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs659023	0.86[CHB][hapmap];0.83[CHD][hapmap];0.94[JPT][hapmap]
rs666682	0.82[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs669813	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs676733	0.82[CHB][hapmap];0.83[CHD][hapmap];0.94[JPT][hapmap]
rs677909	0.86[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs682928	0.80[CHB][hapmap];1.00[JPT][hapmap]
rs683494	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs694011	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs7110631	0.94[ASN][1000 genomes]
rs7114331	0.87[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs7114401	0.87[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7129687	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs7941541	0.95[CHB][hapmap];0.97[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7952506	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs867611	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs9787874	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[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	nsv1050948	chr11:85756325-85968665	Active TSS Genic enhancers Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv541117	chr11:85756325-85968665	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv832223	chr11:85845315-86015957	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription 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 miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85845200-85858600	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr11:85845800-85859800	Weak transcription	Aorta	Aorta
3	chr11:85846400-85862200	Weak transcription	Psoas Muscle	Psoas
4	chr11:85847400-85855600	Weak transcription	Stomach Mucosa	stomach
5	chr11:85848000-85861200	Weak transcription	Small Intestine	intestine
6	chr11:85848000-85861600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr11:85848200-85854400	Weak transcription	Fetal Intestine Large	intestine
8	chr11:85849000-85858600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
9	chr11:85849200-85856000	Enhancers	Primary T cells fromperipheralblood	blood
10	chr11:85849200-85857200	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr11:85849400-85854400	Enhancers	Primary B cells from cord blood	blood
12	chr11:85849400-85856200	Enhancers	Primary hematopoietic stem cells	blood
13	chr11:85849800-85854800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
14	chr11:85850400-85854400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr11:85850400-85862600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr11:85850600-85854600	Weak transcription	Primary B cells from peripheral blood	blood
17	chr11:85850600-85854600	Weak transcription	Duodenum Mucosa	Duodenum
18	chr11:85850600-85856800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr11:85850800-85854600	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr11:85851200-85854200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr11:85851200-85854200	Enhancers	K562	blood
22	chr11:85852000-85854200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr11:85852200-85854800	Weak transcription	Brain Substantia Nigra	brain
24	chr11:85852200-85855600	Weak transcription	Brain Cingulate Gyrus	brain
25	chr11:85852400-85854600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr11:85852600-85854400	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr11:85852600-85854600	Weak transcription	Adipose Nuclei	Adipose
28	chr11:85852600-85855400	Weak transcription	Liver	Liver
29	chr11:85852600-85855400	Weak transcription	Brain Angular Gyrus	brain
30	chr11:85852600-85855600	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr11:85852600-85859200	Weak transcription	Brain Anterior Caudate	brain
32	chr11:85852800-85862200	Weak transcription	Right Atrium	heart
33	chr11:85853000-85856400	Enhancers	Primary T killer memory cells from peripheral blood	blood
34	chr11:85853200-85854400	Weak transcription	GM12878-XiMat	blood
35	chr11:85853200-85859800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr11:85853200-85860200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr11:85853200-85860600	Weak transcription	Osteobl	bone
38	chr11:85853400-85855400	Weak transcription	Brain Hippocampus Middle	brain
39	chr11:85853400-85855800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
40	chr11:85853600-85854400	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr11:85853600-85855800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
42	chr11:85853800-85856600	Enhancers	Primary neutrophils fromperipheralblood	blood
43	chr11:85854000-85856000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
44	chr11:85854000-85856000	Enhancers	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links