Variant report

Variant	rs586088
Chromosome Location	chr11:74203308-74203309
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:7)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:7 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:74203208-74203431	MCF-7	breast:	n/a	n/a
2	POLR2A	chr11:74203167-74205092	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr11:74203205-74203510	MCF-7	breast:	n/a	n/a
4	POLR2A	chr11:74203219-74203439	MCF-7	breast:	n/a	n/a
5	POLR2A	chr11:74203236-74203363	Gliobla	brain:	n/a	n/a
6	POLR2A	chr11:74203185-74203385	GM12878	blood:	n/a	n/a
7	POLR2A	chr11:74203037-74203508	ECC-1	luminal epithelium:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr11:74200976..74203933-chr11:74257256..74259577,2	MCF-7	breast:
2	chr11:74175411..74179003-chr11:74201966..74206100,6	MCF-7	breast:
3	chr11:74171843..74173907-chr11:74203180..74205587,3	MCF-7	breast:
4	chr11:74175244..74178880-chr11:74203216..74205739,4	MCF-7	breast:
5	chr11:74203150..74205819-chr11:74301632..74306352,4	MCF-7	breast:
6	chr11:74202987..74205917-chr11:75525143..75527102,2	MCF-7	breast:
7	chr11:74196733..74198968-chr11:74202003..74205722,4	K562	blood:
8	chr11:74185351..74193647-chr11:74202565..74206845,12	MCF-7	breast:

No data

Variant related genes	Relation type
POLD3	TF binding region
ENSG00000254837	TF binding region
ENSG00000255507	Chromatin interaction
ENSG00000255444	Chromatin interaction
ENSG00000198382	Chromatin interaction
ENSG00000254974	Chromatin interaction
ENSG00000077514	Chromatin interaction
ENSG00000175538	Chromatin interaction

Extended variants
information (count: 100 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10736800	0.80[EUR][1000 genomes]
rs12364885	0.84[ASN][1000 genomes]
rs1280207	0.83[EUR][1000 genomes]
rs1280211	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1280212	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1280217	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1280220	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1298868	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1315212	0.80[EUR][1000 genomes]
rs1315213	0.80[EUR][1000 genomes]
rs1315214	0.80[EUR][1000 genomes]
rs1315218	0.80[EUR][1000 genomes]
rs1316182	0.80[EUR][1000 genomes]
rs1433968	0.81[EUR][1000 genomes]
rs1610546	0.80[EUR][1000 genomes]
rs1616179	0.80[EUR][1000 genomes]
rs1617788	0.80[EUR][1000 genomes]
rs1617968	0.81[EUR][1000 genomes]
rs1655469	0.82[EUR][1000 genomes]
rs1655475	0.82[EUR][1000 genomes]
rs1783196	0.81[EUR][1000 genomes]
rs1783197	0.81[EUR][1000 genomes]
rs1783201	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1783202	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1787091	0.80[EUR][1000 genomes]
rs1787097	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1787102	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1787109	0.82[EUR][1000 genomes]
rs1791492	0.80[EUR][1000 genomes]
rs2509562	0.80[EUR][1000 genomes]
rs2509563	0.80[EUR][1000 genomes]
rs2509993	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2570616	0.81[EUR][1000 genomes]
rs2916310	0.81[EUR][1000 genomes]
rs3017114	0.80[EUR][1000 genomes]
rs3741128	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3741129	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs581831	0.95[ASN][1000 genomes]
rs583404	0.83[EUR][1000 genomes]
rs589161	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs589970	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs594143	0.81[EUR][1000 genomes]
rs594437	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs594628	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs598395	0.80[EUR][1000 genomes]
rs598525	0.83[EUR][1000 genomes]
rs598821	0.83[EUR][1000 genomes]
rs598926	0.81[EUR][1000 genomes]
rs601419	0.95[ASN][1000 genomes]
rs601904	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs602936	0.82[EUR][1000 genomes]
rs608978	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs610435	0.81[EUR][1000 genomes]
rs615732	0.81[EUR][1000 genomes]
rs617343	0.83[EUR][1000 genomes]
rs617989	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs627824	0.82[EUR][1000 genomes]
rs627886	0.83[EUR][1000 genomes]
rs628574	0.81[EUR][1000 genomes]
rs640094	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs641213	0.86[YRI][hapmap]
rs642932	0.80[EUR][1000 genomes]
rs645269	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs645541	0.82[EUR][1000 genomes]
rs648677	0.80[EUR][1000 genomes]
rs649460	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs654943	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs655025	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs656506	0.96[CEU][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs657339	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6592566	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs659581	0.82[EUR][1000 genomes]
rs660107	0.80[EUR][1000 genomes]
rs660123	0.82[EUR][1000 genomes]
rs660418	0.82[EUR][1000 genomes]
rs660855	0.80[EUR][1000 genomes]
rs661781	0.80[EUR][1000 genomes]
rs663016	0.80[EUR][1000 genomes]
rs663499	0.80[EUR][1000 genomes]
rs663555	0.80[EUR][1000 genomes]
rs674306	0.80[EUR][1000 genomes]
rs674660	0.80[EUR][1000 genomes]
rs675086	0.82[EUR][1000 genomes]
rs675450	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs675580	0.80[EUR][1000 genomes]
rs676537	0.80[EUR][1000 genomes]
rs677491	0.81[EUR][1000 genomes]
rs694606	0.80[EUR][1000 genomes]
rs7121457	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7928160	0.81[EUR][1000 genomes]
rs7931184	0.82[EUR][1000 genomes]
rs9787964	0.81[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	esv2757451	chr11:73842609-74545888	Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	esv2759837	chr11:73842609-74557597	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
3	esv34979	chr11:73878688-74533452	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer 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 miRNA target site	85 gene(s)	inside rSNPs	diseases
4	esv2758277	chr11:73887567-74557597	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
5	nsv825994	chr11:73936667-74534455	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
6	nsv832209	chr11:74155883-74329119	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
7	nsv897913	chr11:74171997-74216705	Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
8	nsv555444	chr11:74200739-74221170	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:74191400-74204000	Weak transcription	Ovary	ovary
2	chr11:74197000-74203800	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr11:74197200-74204200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr11:74197600-74204000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr11:74198200-74203400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr11:74198200-74204000	Weak transcription	Lung	lung
7	chr11:74198200-74204000	Weak transcription	Pancreas	Pancrea
8	chr11:74198400-74204000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr11:74199600-74204000	Weak transcription	HepG2	liver
10	chr11:74200000-74203400	Weak transcription	Fetal Intestine Large	intestine
11	chr11:74200400-74204200	Weak transcription	Spleen	Spleen
12	chr11:74200600-74204000	Weak transcription	Brain Cingulate Gyrus	brain
13	chr11:74200800-74203400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr11:74200800-74203800	Weak transcription	Psoas Muscle	Psoas
15	chr11:74200800-74204000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr11:74201000-74203400	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr11:74201000-74203400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr11:74201000-74204000	Weak transcription	Aorta	Aorta
19	chr11:74201200-74204000	Weak transcription	Right Atrium	heart
20	chr11:74201200-74204200	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr11:74201600-74203400	Weak transcription	Fetal Kidney	kidney
22	chr11:74201600-74203800	Weak transcription	Right Ventricle	heart
23	chr11:74201600-74204000	Weak transcription	Brain Angular Gyrus	brain
24	chr11:74201800-74204000	Weak transcription	Osteobl	bone
25	chr11:74202000-74203600	Weak transcription	Brain Hippocampus Middle	brain
26	chr11:74202200-74204000	Weak transcription	Primary T cells from cord blood	blood
27	chr11:74202200-74204000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr11:74202200-74204000	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr11:74202400-74203800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr11:74202800-74203600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
31	chr11:74202800-74203800	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr11:74203000-74203400	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr11:74203000-74203400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr11:74203000-74203400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr11:74203000-74203400	Enhancers	K562	blood
36	chr11:74203000-74203600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr11:74203000-74203800	Enhancers	Fetal Muscle Trunk	muscle
38	chr11:74203000-74203800	Enhancers	HMEC	breast
39	chr11:74203000-74204000	Enhancers	Primary monocytes fromperipheralblood	blood
40	chr11:74203200-74203400	Enhancers	H9 Cell Line	embryonic stem cell
41	chr11:74203200-74203400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
42	chr11:74203200-74203400	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr11:74203200-74203400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr11:74203200-74203400	Enhancers	Primary hematopoietic stem cells short term culture	blood
45	chr11:74203200-74203400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr11:74203200-74203400	Enhancers	Muscle Satellite Cultured Cells	--
47	chr11:74203200-74203400	Genic enhancers	Liver	Liver
48	chr11:74203200-74203400	Enhancers	Esophagus	oesophagus
49	chr11:74203200-74203400	Enhancers	Fetal Intestine Small	intestine
50	chr11:74203200-74203400	Enhancers	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links