Variant report

Variant	rs3812004
Chromosome Location	chr5:151154883-151154884
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	chr5:151154259-151155166	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr5:151154607-151155271	HepG2	liver:	n/a	n/a
3	E2F4	chr5:151154686-151155198	MCF10A-Er-Src	breast:	n/a	n/a
4	POLR2A	chr5:151154456-151155440	GM12878	blood:	n/a	n/a
5	POLR2A	chr5:151154157-151155353	GM12878	blood:	n/a	n/a
6	POLR2A	chr5:151154534-151155822	MCF10A-Er-Src	breast:	n/a	n/a
7	POLR2A	chr5:151154120-151156141	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:151153858..151156919-chr5:151169412..151173368,3	K562	blood:
2	chr5:151152974..151155334-chr5:154133414..154135219,2	K562	blood:

Variant related genes	Relation type
ATOX1	TF binding region
ENSG00000155506	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10036616	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10058885	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10059511	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10062143	0.89[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10064300	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10074267	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10074385	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10074443	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10075210	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[MEX][hapmap];0.95[TSI][hapmap];0.96[EUR][1000 genomes]
rs10079457	0.89[CEU][hapmap]
rs10477000	0.85[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11953528	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11954396	0.87[EUR][1000 genomes]
rs11956353	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11958614	0.85[EUR][1000 genomes]
rs12332554	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13361115	1.00[CHB][hapmap]
rs28445353	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28917168	0.92[EUR][1000 genomes]
rs28917174	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28917193	0.92[EUR][1000 genomes]
rs2913890	0.94[CEU][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap]
rs3209060	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3812003	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57723600	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6876258	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6881068	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6898736	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73281646	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7356721	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7726718	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7731472	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7734314	0.85[ASW][hapmap]

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:151149600-151155000	Active TSS	Psoas Muscle	Psoas
2	chr5:151149800-151155000	Active TSS	Aorta	Aorta
3	chr5:151152000-151155400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr5:151152200-151156000	Transcr. at gene 5' and 3'	Dnd41	blood
5	chr5:151152400-151155200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr5:151152600-151155000	Transcr. at gene 5' and 3'	K562	blood
7	chr5:151152600-151155400	Transcr. at gene 5' and 3'	A549	lung
8	chr5:151152800-151160000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr5:151152800-151163000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr5:151153000-151155200	Transcr. at gene 5' and 3'	HUES64 Cell Line	embryonic stem cell
11	chr5:151153000-151157200	Weak transcription	Left Ventricle	heart
12	chr5:151153000-151160000	Weak transcription	Gastric	stomach
13	chr5:151153000-151167400	Weak transcription	Esophagus	oesophagus
14	chr5:151153000-151167400	Weak transcription	Lung	lung
15	chr5:151153000-151167600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr5:151153200-151155000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr5:151153200-151155400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
18	chr5:151153200-151155800	Enhancers	Primary B cells from peripheral blood	blood
19	chr5:151153400-151156600	Weak transcription	Fetal Muscle Trunk	muscle
20	chr5:151153600-151155000	Flanking Active TSS	NHEK	skin
21	chr5:151153600-151155200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
22	chr5:151153600-151155200	Enhancers	Sigmoid Colon	Sigmoid Colon
23	chr5:151153600-151155600	Flanking Active TSS	HUVEC	blood vessel
24	chr5:151153800-151155000	Enhancers	Fetal Stomach	stomach
25	chr5:151153800-151155000	Weak transcription	Pancreas	Pancrea
26	chr5:151153800-151155200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr5:151153800-151155200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr5:151153800-151155200	Enhancers	Rectal Mucosa Donor 31	rectum
29	chr5:151153800-151155800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr5:151153800-151155800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
31	chr5:151153800-151155800	Enhancers	Brain Inferior Temporal Lobe	brain
32	chr5:151153800-151155800	Enhancers	Fetal Brain Male	brain
33	chr5:151153800-151156000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr5:151153800-151157200	Enhancers	Primary T helper naive cells from peripheral blood	blood
35	chr5:151153800-151160400	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr5:151153800-151162000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
37	chr5:151153800-151165200	Enhancers	Primary T killer memory cells from peripheral blood	blood
38	chr5:151153800-151166800	Weak transcription	Colonic Mucosa	Colon
39	chr5:151153800-151167400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr5:151153800-151169800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
41	chr5:151154000-151155000	Enhancers	HSMM	muscle
42	chr5:151154000-151155200	Enhancers	Primary T cells fromperipheralblood	blood
43	chr5:151154000-151155200	Flanking Active TSS	Brain Germinal Matrix	brain
44	chr5:151154000-151155200	Enhancers	Fetal Intestine Large	intestine
45	chr5:151154000-151155400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr5:151154000-151155400	Enhancers	Monocytes-CD14+_RO01746	blood
47	chr5:151154000-151155800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
48	chr5:151154000-151156000	Enhancers	Brain Hippocampus Middle	brain
49	chr5:151154000-151156000	Enhancers	Fetal Intestine Small	intestine
50	chr5:151154000-151156200	Enhancers	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links