Variant report

Variant	rs56292037
Chromosome Location	chr3:133329458-133329459
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:133328964-133329619	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:133323853..133325578-chr3:133328541..133330294,2	MCF-7	breast:

Variant related genes	Relation type
TOPBP1	TF binding region

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10512903	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10512904	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10512907	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10512908	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10512909	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11706413	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11706586	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11706809	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11707750	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11708197	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11708532	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11708565	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11709132	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11709349	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11709404	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11709461	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11709940	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11710111	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11710717	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11711706	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11712186	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11712672	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11713205	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11713248	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11714392	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11714422	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715407	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715435	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715615	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11716197	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11716388	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11716415	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11717424	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11717902	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718050	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718234	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718255	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11719366	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11719585	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11719687	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11720825	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17301253	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17301521	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17301766	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17301889	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17373504	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17373726	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2718801	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs55729127	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55741097	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56040719	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56323915	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282385	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62282388	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282389	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282390	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282392	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282415	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282417	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282418	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282419	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282420	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282421	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282424	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282425	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282427	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282428	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282429	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282431	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282451	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282452	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282453	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282454	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7349558	0.84[EUR][1000 genomes]

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133305800-133330600	Weak transcription	Fetal Intestine Small	intestine
2	chr3:133306400-133342800	Weak transcription	Colonic Mucosa	Colon
3	chr3:133307200-133335800	Weak transcription	Pancreas	Pancrea
4	chr3:133307400-133331200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:133307400-133347200	Weak transcription	Brain Angular Gyrus	brain
6	chr3:133308000-133335400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr3:133308200-133330600	Weak transcription	Gastric	stomach
8	chr3:133308200-133342200	Weak transcription	Brain Substantia Nigra	brain
9	chr3:133308200-133356000	Weak transcription	Colon Smooth Muscle	Colon
10	chr3:133308600-133347600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr3:133308600-133349200	Weak transcription	Esophagus	oesophagus
12	chr3:133308600-133351600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr3:133308600-133352200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr3:133310800-133335000	Weak transcription	Aorta	Aorta
15	chr3:133310800-133349400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr3:133314200-133335400	Weak transcription	NHLF	lung
17	chr3:133314800-133335800	Weak transcription	HSMMtube	muscle
18	chr3:133314800-133349200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr3:133314800-133351600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr3:133316600-133329800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr3:133316600-133377600	Strong transcription	Dnd41	blood
22	chr3:133316600-133378000	Strong transcription	Primary neutrophils fromperipheralblood	blood
23	chr3:133317000-133378200	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr3:133317200-133378800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:133318400-133378600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
26	chr3:133319000-133363800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr3:133322200-133378200	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr3:133322600-133378800	Weak transcription	Stomach Mucosa	stomach
29	chr3:133323200-133333200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr3:133323200-133341000	Strong transcription	Cortex derived primary cultured neurospheres	brain
31	chr3:133323200-133378200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr3:133323200-133378400	Strong transcription	Fetal Thymus	thymus
33	chr3:133323200-133378800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr3:133323400-133378200	Strong transcription	HUES48 Cell Line	embryonic stem cell
35	chr3:133323600-133331400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr3:133323600-133377800	Strong transcription	Primary monocytes fromperipheralblood	blood
37	chr3:133323800-133331400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr3:133323800-133331800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr3:133323800-133332000	Strong transcription	Placenta	Placenta
40	chr3:133323800-133332200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
41	chr3:133323800-133378800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
42	chr3:133324000-133329800	Weak transcription	Fetal Stomach	stomach
43	chr3:133324200-133378200	Strong transcription	HUES6 Cell Line	embryonic stem cell
44	chr3:133324400-133338600	Strong transcription	Primary B cells from peripheral blood	blood
45	chr3:133324600-133331200	Strong transcription	Primary B cells from cord blood	blood
46	chr3:133325000-133345000	Weak transcription	Psoas Muscle	Psoas
47	chr3:133325200-133332400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr3:133325200-133352800	Strong transcription	Duodenum Smooth Muscle	Duodenum
49	chr3:133325200-133353000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr3:133325400-133331400	Strong transcription	Primary T cells fromperipheralblood	blood

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