Variant report

Variant	rs2458499
Chromosome Location	chr11:85659847-85659848
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:85659757..85662589-chr11:85664114..85665919,2	K562	blood:
2	chr11:85650684..85656124-chr11:85659031..85663462,6	K562	blood:
3	chr11:85658069..85660517-chr11:85950815..85953002,2	K562	blood:
4	chr11:85659346..85662146-chr11:85836762..85839271,2	K562	blood:
5	chr11:85658393..85662131-chr11:85674389..85678033,3	K562	blood:
6	chr11:85658393..85660866-chr11:85673008..85675889,3	K562	blood:
7	chr11:85659572..85662083-chr11:85672337..85675238,2	MCF-7	breast:
8	chr11:85658382..85661257-chr11:85664114..85666367,2	K562	blood:

No data

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10751134	0.82[YRI][hapmap]
rs11234493	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1237230	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1996108	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2077815	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2155051	0.89[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2458493	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2458496	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2458500	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2508688	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2508691	0.83[AFR][1000 genomes]
rs2508696	0.83[YRI][hapmap]
rs2509608	0.94[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2509609	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs472618	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs488134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs489486	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs493254	1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs494369	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs497711	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs504129	0.88[AMR][1000 genomes]
rs527162	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs528109	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs536841	1.00[YRI][hapmap]
rs540422	0.95[CHB][hapmap];0.84[JPT][hapmap];0.84[ASN][1000 genomes]
rs542167	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs544458	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs547767	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs548121	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs556562	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs564658	0.84[ASN][1000 genomes]
rs585820	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs588076	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs588380	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs592297	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs592314	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs595972	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs596864	0.81[ASN][1000 genomes]
rs597446	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs600258	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs600743	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs601185	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs602222	0.86[CHB][hapmap]
rs602391	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs603615	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs606505	0.82[AFR][1000 genomes]
rs616555	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs617836	0.82[ASN][1000 genomes]
rs618001	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs618629	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs618679	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs622220	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs626542	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs627818	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs634719	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs635168	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs637304	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs639012	0.82[AFR][1000 genomes]
rs645299	0.90[CHB][hapmap]
rs648270	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs654194	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs655641	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs659801	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs664050	0.86[ASN][1000 genomes]
rs669556	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs669813	1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs670606	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs673751	0.83[AFR][1000 genomes]
rs677909	1.00[YRI][hapmap]
rs680119	1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs682366	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs682928	0.86[CHB][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs694011	0.83[YRI][hapmap]
rs75751	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7938033	0.86[CHB][hapmap]
rs7941541	0.82[YRI][hapmap]
rs7951988	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9804630	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051155	chr11:85006564-85721261	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv541110	chr11:85006564-85721261	Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	nsv1035489	chr11:85502953-85778229	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv1048818	chr11:85524635-85746473	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv541116	chr11:85524635-85746473	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS 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	18 gene(s)	inside rSNPs	diseases
6	nsv1053808	chr11:85588919-85757693	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
7	nsv1053599	chr11:85641619-85684353	Flanking Active TSS ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
8	nsv1040567	chr11:85641619-85684935	Strong transcription Weak transcription Genic enhancers Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85646600-85660000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr11:85646600-85667400	Weak transcription	Gastric	stomach
3	chr11:85652800-85664400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr11:85652800-85668800	Weak transcription	Small Intestine	intestine
5	chr11:85656000-85661000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr11:85656000-85679800	Weak transcription	Fetal Brain Male	brain
7	chr11:85656200-85661000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr11:85656400-85660200	Enhancers	Adipose Nuclei	Adipose
9	chr11:85656400-85660200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
10	chr11:85656400-85660200	Enhancers	HUVEC	blood vessel
11	chr11:85656600-85662400	Enhancers	HepG2	liver
12	chr11:85656800-85660200	Enhancers	Brain Hippocampus Middle	brain
13	chr11:85656800-85661400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr11:85657000-85660200	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr11:85657000-85660600	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr11:85657000-85661000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr11:85657200-85660000	Weak transcription	Placenta	Placenta
18	chr11:85657200-85665600	Weak transcription	Lung	lung
19	chr11:85657400-85660400	Enhancers	NHDF-Ad	bronchial
20	chr11:85657400-85660800	Enhancers	Osteobl	bone
21	chr11:85657600-85660400	Enhancers	NHEK	skin
22	chr11:85657600-85665600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr11:85657600-85666600	Weak transcription	Spleen	Spleen
24	chr11:85657800-85660400	Enhancers	HMEC	breast
25	chr11:85657800-85661400	Enhancers	GM12878-XiMat	blood
26	chr11:85657800-85664200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr11:85658400-85660200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
28	chr11:85658400-85660200	Enhancers	NHLF	lung
29	chr11:85658400-85660400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr11:85658400-85666600	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr11:85658400-85667400	Weak transcription	Pancreas	Pancrea
32	chr11:85658600-85660200	Enhancers	Brain Substantia Nigra	brain
33	chr11:85658600-85660200	Enhancers	A549	lung
34	chr11:85658600-85660200	Enhancers	Hela-S3	cervix
35	chr11:85658600-85661000	Enhancers	Muscle Satellite Cultured Cells	--
36	chr11:85658600-85664400	Weak transcription	Primary B cells from cord blood	blood
37	chr11:85658600-85664400	Weak transcription	Liver	Liver
38	chr11:85658600-85664600	Weak transcription	Fetal Thymus	thymus
39	chr11:85658600-85665400	Weak transcription	Aorta	Aorta
40	chr11:85658600-85665400	Weak transcription	Left Ventricle	heart
41	chr11:85658600-85667400	Weak transcription	Esophagus	oesophagus
42	chr11:85658600-85673000	Weak transcription	Right Ventricle	heart
43	chr11:85658800-85660000	Weak transcription	Fetal Kidney	kidney
44	chr11:85658800-85660200	Enhancers	HSMM	muscle
45	chr11:85658800-85664600	Weak transcription	Thymus	Thymus
46	chr11:85658800-85665400	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr11:85659000-85661000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr11:85659000-85665000	Weak transcription	Duodenum Mucosa	Duodenum
49	chr11:85659200-85660200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr11:85659200-85660200	Enhancers	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links