Variant report

Variant	rs8192412
Chromosome Location	chr15:72499955-72499956
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:48)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:48 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:72499946-72500378	HepG2	liver:	n/a	n/a
2	POLR2A	chr15:72498848-72501410	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr15:72498217-72501459	SK-N-SH	brain:	n/a	n/a
4	POLR2A	chr15:72498027-72500773	Hela-S3	cervix:	n/a	n/a
5	POLR2A	chr15:72498099-72500623	GM12878	blood:	n/a	n/a
6	POLR2A	chr15:72499568-72500310	GM12891	blood:	n/a	n/a
7	POLR2A	chr15:72498840-72500514	GM12892	blood:	n/a	n/a
8	POLR2A	chr15:72490228-72501294	GM12878	blood:	n/a	n/a
9	POLR2A	chr15:72498005-72500706	HepG2	liver:	n/a	n/a
10	POLR2A	chr15:72498163-72501330	K562	blood:	n/a	n/a
11	POLR2A	chr15:72499883-72500360	GM12892	blood:	n/a	n/a
12	POLR2A	chr15:72498152-72500954	GM12878	blood:	n/a	n/a
13	POLR2A	chr15:72499924-72500318	GM12878	blood:	n/a	n/a
14	POLR2A	chr15:72499798-72500420	K562	blood:	n/a	n/a
15	POLR2A	chr15:72499171-72500436	GM12892	blood:	n/a	n/a
16	POLR2A	chr15:72488837-72501457	U87	brain:	n/a	n/a
17	POLR2A	chr15:72499926-72500128	A549	lung:	n/a	n/a
18	POLR2A	chr15:72488735-72501628	U87	brain:	n/a	n/a
19	POLR2A	chr15:72490001-72501490	GM12891	blood:	n/a	n/a
20	POLR2A	chr15:72499903-72500600	ECC-1	luminal epithelium:	n/a	n/a
21	POLR2A	chr15:72499913-72500348	A549	lung:	n/a	n/a
22	POLR2A	chr15:72499630-72500518	HUVEC	blood vessel:	n/a	n/a
23	POLR2A	chr15:72499867-72500421	A549	lung:	n/a	n/a
24	POLR2A	chr15:72488802-72501457	U87	brain:	n/a	n/a
25	POLR2A	chr15:72499777-72500453	HL-60	blood:	n/a	n/a
26	POLR2A	chr15:72499942-72500271	GM12878	blood:	n/a	n/a
27	POLR2A	chr15:72499908-72500408	GM12892	blood:	n/a	n/a
28	POLR2A	chr15:72498023-72501355	Hela-S3	cervix:	n/a	n/a
29	POLR2A	chr15:72498968-72500580	GM12891	blood:	n/a	n/a
30	POLR2A	chr15:72488729-72501598	U87	brain:	n/a	n/a
31	POLR2A	chr15:72497975-72501492	PFSK-1	brain:	n/a	n/a
32	POLR2A	chr15:72499892-72500341	HepG2	liver:	n/a	n/a
33	POLR2A	chr15:72498896-72500680	K562	blood:	n/a	n/a
34	POLR2A	chr15:72499654-72500165	GM12891	blood:	n/a	n/a
35	POLR2A	chr15:72498804-72500476	K562	blood:	n/a	n/a
36	POLR2A	chr15:72499402-72500647	PFSK-1	brain:	n/a	n/a
37	POLR2A	chr15:72498728-72500460	HCT-116	colon:	n/a	n/a
38	POLR2A	chr15:72489656-72501421	GM12878	blood:	n/a	n/a
39	POLR2A	chr15:72498949-72500430	HCT-116	colon:	n/a	n/a
40	POLR2A	chr15:72498082-72501381	HepG2	liver:	n/a	n/a
41	POLR2A	chr15:72498195-72501286	A549	lung:	n/a	n/a
42	POLR2A	chr15:72497781-72501382	Hela-S3	cervix:	n/a	n/a
43	POLR2A	chr15:72499243-72500510	GM12891	blood:	n/a	n/a
44	POLR2A	chr15:72499592-72500590	HL-60	blood:	n/a	n/a
45	POLR2A	chr15:72498952-72500647	GM18505	blood:	n/a	n/a
46	POLR2A	chr15:72498976-72500446	PANC-1	pancreas:	n/a	n/a
47	POLR2A	chr15:72498096-72501429	Hela-S3	cervix:	n/a	n/a
48	POLR2A	chr15:72498105-72500724	SK-N-MC	brain:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:72498640..72500862-chr15:72563465..72565516,2	MCF-7	breast:
2	chr15:72498006..72500536-chr15:72520929..72523260,2	K562	blood:
3	chr15:72498391..72500734-chr15:72513499..72516225,2	K562	blood:
4	chr15:72494875..72497791-chr15:72499662..72501925,3	MCF-7	breast:

No data

Variant related genes	Relation type
PKM	TF binding region
ENSG00000067225	Chromatin interaction
ENSG00000137817	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10083583	0.81[AFR][1000 genomes]
rs10518987	0.81[AFR][1000 genomes]
rs12324744	0.96[AFR][1000 genomes]
rs12907087	0.92[AFR][1000 genomes]
rs12907377	0.92[AFR][1000 genomes]
rs12909590	0.82[AFR][1000 genomes]
rs12911285	0.92[AFR][1000 genomes]
rs12914269	0.92[AFR][1000 genomes]
rs1426169	0.92[AFR][1000 genomes]
rs2415133	0.85[AFR][1000 genomes]
rs28414926	0.87[AFR][1000 genomes]
rs34346715	0.92[AFR][1000 genomes]
rs34382909	0.96[AFR][1000 genomes]
rs35104697	0.92[AFR][1000 genomes]
rs35694406	0.90[AFR][1000 genomes]
rs36110969	0.92[AFR][1000 genomes]
rs3743227	0.96[AFR][1000 genomes]
rs3743228	0.96[AFR][1000 genomes]
rs3743229	0.96[AFR][1000 genomes]
rs57420281	0.96[AFR][1000 genomes]
rs57595193	0.89[AFR][1000 genomes]
rs57692836	0.96[AFR][1000 genomes]
rs58352854	0.96[AFR][1000 genomes]
rs60350471	1.00[AFR][1000 genomes]
rs60600349	0.98[AFR][1000 genomes]
rs61109283	0.85[AFR][1000 genomes]
rs6494994	1.00[AFR][1000 genomes]
rs67195650	0.96[AFR][1000 genomes]
rs7174264	0.96[AFR][1000 genomes]
rs73436365	0.89[AFR][1000 genomes]
rs73436366	0.89[AFR][1000 genomes]
rs73436377	0.89[AFR][1000 genomes]
rs73436397	1.00[AFR][1000 genomes]
rs73436400	1.00[AFR][1000 genomes]
rs73438403	0.98[AFR][1000 genomes]
rs73438405	1.00[AFR][1000 genomes]
rs73438414	1.00[AFR][1000 genomes]
rs73438446	0.89[AFR][1000 genomes]
rs73438458	0.91[AFR][1000 genomes]
rs73438466	0.81[AFR][1000 genomes]
rs8028169	1.00[AFR][1000 genomes]
rs8033167	1.00[AFR][1000 genomes]
rs8192354	1.00[AFR][1000 genomes]
rs8192360	1.00[AFR][1000 genomes]
rs8192365	1.00[AFR][1000 genomes]
rs8192367	0.96[AFR][1000 genomes]
rs8192379	1.00[AFR][1000 genomes]
rs8192393	1.00[AFR][1000 genomes]
rs8192408	0.98[AFR][1000 genomes]
rs8192413	1.00[AFR][1000 genomes]
rs8192418	0.93[AFR][1000 genomes]
rs890312	0.92[AFR][1000 genomes]
rs9806184	0.96[AFR][1000 genomes]
rs9806204	0.96[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431395	chr15:72266174-72701777	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv833051	chr15:72315471-72508429	Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv530817	chr15:72350885-72773374	Weak transcription Enhancers Flanking Active TSS Strong transcription 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 miRNA target site	173 gene(s)	inside rSNPs	diseases
4	esv3430860	chr15:72373723-72849907	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72490000-72501800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:72490000-72507600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr15:72490400-72504000	Genic enhancers	A549	lung
4	chr15:72490400-72512000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
5	chr15:72490600-72503400	Strong transcription	Primary B cells from cord blood	blood
6	chr15:72490600-72508200	Strong transcription	Primary T helper cells PMA-I stimulated	--
7	chr15:72490600-72512000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr15:72490600-72513000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr15:72490600-72513200	Strong transcription	Primary B cells from peripheral blood	blood
10	chr15:72490600-72513600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr15:72490600-72513800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr15:72490600-72515600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:72490600-72518000	Strong transcription	Dnd41	blood
14	chr15:72490800-72504400	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr15:72490800-72504400	Strong transcription	Colonic Mucosa	Colon
16	chr15:72490800-72511800	Strong transcription	Primary neutrophils fromperipheralblood	blood
17	chr15:72490800-72511800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr15:72490800-72511800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr15:72490800-72512200	Strong transcription	Primary T helper cells fromperipheralblood	blood
20	chr15:72490800-72513000	Strong transcription	HUES64 Cell Line	embryonic stem cell
21	chr15:72490800-72513000	Strong transcription	Sigmoid Colon	Sigmoid Colon
22	chr15:72490800-72514200	Strong transcription	Primary T cells from cord blood	blood
23	chr15:72490800-72514400	Strong transcription	HUES6 Cell Line	embryonic stem cell
24	chr15:72490800-72518400	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr15:72491000-72502800	Strong transcription	Pancreas	Pancrea
26	chr15:72491000-72504800	Strong transcription	iPS-15b Cell Line	embryonic stem cell
27	chr15:72491000-72504800	Strong transcription	Aorta	Aorta
28	chr15:72491000-72511600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr15:72491000-72512200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr15:72491000-72512200	Strong transcription	Monocytes-CD14+_RO01746	blood
31	chr15:72491000-72512600	Strong transcription	Primary hematopoietic stem cells	blood
32	chr15:72491000-72512600	Strong transcription	Rectal Mucosa Donor 29	rectum
33	chr15:72491000-72513000	Strong transcription	H9 Cell Line	embryonic stem cell
34	chr15:72491000-72513400	Strong transcription	Fetal Lung	lung
35	chr15:72491000-72513600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
36	chr15:72491000-72513600	Strong transcription	Placenta Amnion	Placenta Amnion
37	chr15:72491000-72513800	Strong transcription	H1 Cell Line	embryonic stem cell
38	chr15:72491000-72513800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr15:72491000-72514600	Strong transcription	K562	blood
40	chr15:72491200-72512000	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr15:72491200-72512000	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
42	chr15:72491200-72512800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
43	chr15:72491200-72513000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr15:72491400-72501000	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr15:72491400-72511600	Strong transcription	Ovary	ovary
46	chr15:72491400-72512400	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr15:72491600-72501400	Genic enhancers	HMEC	breast
48	chr15:72491600-72511200	Strong transcription	GM12878-XiMat	blood
49	chr15:72491600-72511800	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr15:72491600-72513600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links