Variant report

Variant	rs2684942
Chromosome Location	chr15:34332060-34332061
allele	C/T
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	chr15:34330481-34332349	GM18505	blood:	n/a	n/a
2	MAX	chr15:34330251-34332230	A549	lung:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34330945-34330952 chr15:34331839-34331848 chr15:34331838-34331849
3	POLR2A	chr15:34330445-34332311	GM19099	blood:	n/a	n/a
4	MYC	chr15:34330125-34332263	NB4	blood:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34330945-34330952 chr15:34331839-34331848 chr15:34331838-34331849
5	POLR2A	chr15:34330437-34332751	GM12878	blood:	n/a	n/a
6	MAX	chr15:34330280-34332085	A549	lung:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34330945-34330952 chr15:34331839-34331848 chr15:34331838-34331849
7	MAX	chr15:34331682-34332166	GM12878	blood:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34331839-34331848 chr15:34331838-34331849
8	POLR2A	chr15:34330277-34332169	NB4	blood:	n/a	n/a
9	POLR2A	chr15:34330472-34332118	GM12892	blood:	n/a	n/a
10	POLR2A	chr15:34331674-34332188	GM12891	blood:	n/a	n/a
11	MAX	chr15:34330425-34332206	GM12878	blood:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34330945-34330952 chr15:34331839-34331848 chr15:34331838-34331849
12	POLR2A	chr15:34330319-34332548	GM12891	blood:	n/a	n/a
13	MTA3	chr15:34331635-34332288	GM12878	blood:	n/a	n/a
14	MYC	chr15:34331649-34332221	MCF10A-Er-Src	breast:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34331839-34331848 chr15:34331838-34331849
15	POLR2A	chr15:34330228-34332241	Raji	blood:	n/a	n/a
16	SPI1	chr15:34331999-34332184	GM12878	blood:	n/a	chr15:34332133-34332146
17	POLR2A	chr15:34331638-34332185	GM12892	blood:	n/a	n/a
18	SPI1	chr15:34331993-34332268	GM12891	blood:	n/a	chr15:34332133-34332146
19	POLR2A	chr15:34332056-34332075	GM12878	blood:	n/a	n/a
20	IKZF1	chr15:34331871-34332313	GM12878	blood:	n/a	n/a
21	STAT3	chr15:34331636-34332260	GM12878	blood:	n/a	n/a
22	POLR2A	chr15:34330415-34332413	HepG2	liver:	n/a	n/a
23	POLR2A	chr15:34331550-34332223	GM12892	blood:	n/a	n/a
24	STAT1	chr15:34331776-34332131	GM12878	blood:	n/a	n/a
25	MAX	chr15:34330316-34332273	NB4	blood:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34330945-34330952 chr15:34331839-34331848 chr15:34331838-34331849
26	MAX	chr15:34331710-34332061	SK-N-SH	brain:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34331839-34331848 chr15:34331838-34331849
27	RUNX3	chr15:34331627-34332281	GM12878	blood:	n/a	n/a
28	MAX	chr15:34331666-34332064	HepG2	liver:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34331839-34331848 chr15:34331838-34331849
29	POLR2A	chr15:34331701-34332240	GM12878	blood:	n/a	n/a
30	POLR2A	chr15:34330018-34332279	MCF10A-Er-Src	breast:	n/a	n/a
31	POLR2A	chr15:34330300-34332253	GM12892	blood:	n/a	n/a
32	BRCA1	chr15:34331653-34332077	Hela-S3	cervix:	n/a	n/a
33	CREB1	chr15:34331663-34332209	GM12878	blood:	n/a	n/a
34	MXI1	chr15:34330393-34332205	GM12878	blood:	n/a	n/a
35	MAX	chr15:34331724-34332078	K562	blood:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34331839-34331848 chr15:34331838-34331849
36	RUNX3	chr15:34331614-34332299	GM12878	blood:	n/a	n/a
37	FOS	chr15:34331830-34332064	MCF10A-Er-Src	breast:	n/a	n/a
38	BHLHE40	chr15:34331683-34332316	GM12878	blood:	n/a	n/a
39	MAX	chr15:34331750-34332070	H1-hESC	embryonic stem cell:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34331839-34331848 chr15:34331838-34331849
40	USF2	chr15:34331700-34332075	GM12878	blood:	n/a	n/a
41	POLR2A	chr15:34330080-34333046	MCF10A-Er-Src	breast:	n/a	n/a
42	POLR2A	chr15:34330512-34332125	GM12878	blood:	n/a	n/a
43	POLR2A	chr15:34331629-34332104	GM12892	blood:	n/a	n/a
44	BATF	chr15:34331690-34332086	GM12878	blood:	n/a	n/a
45	MXI1	chr15:34329925-34332895	SK-N-SH	brain:	n/a	n/a
46	MAX	chr15:34330330-34332128	HepG2	liver:	n/a	chr15:34331840-34331847 chr15:34331838-34331849 chr15:34330945-34330952 chr15:34331839-34331848 chr15:34331838-34331849
47	CREB1	chr15:34331659-34332309	GM12878	blood:	n/a	n/a
48	BCLAF1	chr15:34331671-34332316	GM12878	blood:	n/a	n/a
49	PML	chr15:34331510-34332160	GM12878	blood:	n/a	n/a
50	ZNF143	chr15:34331804-34332291	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:34330030..34332710-chr15:35259474..35262090,2	MCF-7	breast:
2	chr15:34329770..34332450-chr15:34500868..34502911,3	K562	blood:
3	chr15:34330950..34333091-chr15:34501411..34503652,2	K562	blood:

Variant related genes	Relation type
AVEN	TF binding region
ENSG00000134152	Chromatin interaction
ENSG00000021776	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10775220	1.00[AMR][1000 genomes]
rs12917199	1.00[AMR][1000 genomes]
rs1865924	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1987381	1.00[EUR][1000 genomes]
rs2243764	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2257058	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2632074	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2632089	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684929	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684938	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684948	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684949	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684957	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2702275	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2705351	1.00[AMR][1000 genomes]
rs2879445	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4411478	0.87[AFR][1000 genomes]
rs4780200	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4780201	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4780202	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs483279	1.00[EUR][1000 genomes]
rs486230	1.00[EUR][1000 genomes]
rs486970	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs488762	1.00[EUR][1000 genomes]
rs489619	1.00[EUR][1000 genomes]
rs489945	1.00[EUR][1000 genomes]
rs499142	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs514472	1.00[EUR][1000 genomes]
rs519152	1.00[EUR][1000 genomes]
rs519210	1.00[EUR][1000 genomes]
rs520032	1.00[EUR][1000 genomes]
rs527470	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs537920	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs542890	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs545484	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs547824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs568229	1.00[EUR][1000 genomes]
rs572179	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs591999	1.00[AMR][1000 genomes]
rs612992	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs639860	1.00[EUR][1000 genomes]
rs643827	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs646339	1.00[EUR][1000 genomes]
rs647721	1.00[EUR][1000 genomes]
rs6495507	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6495516	1.00[AMR][1000 genomes]
rs681873	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs682484	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs683417	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7162728	1.00[AMR][1000 genomes]
rs74007651	1.00[EUR][1000 genomes]
rs74007652	1.00[EUR][1000 genomes]
rs7494971	1.00[AMR][1000 genomes]
rs8027337	1.00[AMR][1000 genomes]
rs8041507	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8041929	1.00[AMR][1000 genomes]
rs889871	1.00[AMR][1000 genomes]
rs891342	1.00[AMR][1000 genomes]
rs919470	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv456789	chr15:34034421-34426618	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv568920	chr15:34034421-34426618	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv471235	chr15:34035529-34421951	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv903985	chr15:34279319-34370487	Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	esv3368275	chr15:34330085-34332358	Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34330000-34332200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr15:34330000-34332200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr15:34330000-34332200	Active TSS	Duodenum Smooth Muscle	Duodenum
4	chr15:34330000-34332400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr15:34331000-34332200	Active TSS	Aorta	Aorta
6	chr15:34331200-34332200	Flanking Active TSS	Primary B cells from cord blood	blood
7	chr15:34331400-34332400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
8	chr15:34331400-34332600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr15:34331600-34332200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr15:34331600-34332200	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
11	chr15:34331600-34332200	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
12	chr15:34331600-34332200	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
13	chr15:34331600-34332200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr15:34331600-34332200	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
15	chr15:34331600-34332200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
16	chr15:34331600-34332200	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
17	chr15:34331600-34332200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
18	chr15:34331600-34332200	Flanking Active TSS	Adipose Nuclei	Adipose
19	chr15:34331600-34332200	Flanking Active TSS	Liver	Liver
20	chr15:34331600-34332200	Flanking Active TSS	Brain Germinal Matrix	brain
21	chr15:34331600-34332200	Flanking Active TSS	Colon Smooth Muscle	Colon
22	chr15:34331600-34332200	Flanking Active TSS	Fetal Intestine Large	intestine
23	chr15:34331600-34332200	Flanking Active TSS	Fetal Thymus	thymus
24	chr15:34331600-34332200	Enhancers	Pancreas	Pancrea
25	chr15:34331600-34332200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
26	chr15:34331600-34332200	Flanking Active TSS	Rectal Smooth Muscle	rectum
27	chr15:34331600-34332200	Flanking Active TSS	A549	lung
28	chr15:34331600-34332200	Flanking Active TSS	Dnd41	blood
29	chr15:34331600-34332200	Flanking Active TSS	Hela-S3	cervix
30	chr15:34331600-34332200	Flanking Active TSS	NH-A	brain
31	chr15:34331600-34332200	Flanking Active TSS	NHDF-Ad	bronchial
32	chr15:34331600-34332200	Flanking Active TSS	Osteobl	bone
33	chr15:34331600-34332400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
34	chr15:34331600-34332400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr15:34331600-34332400	Flanking Active TSS	HepG2	liver
36	chr15:34331600-34332600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr15:34331600-34332600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr15:34331600-34332800	Flanking Active TSS	GM12878-XiMat	blood
39	chr15:34331800-34332200	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
40	chr15:34331800-34332200	Bivalent Enhancer	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr15:34331800-34332200	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr15:34331800-34332200	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr15:34331800-34332200	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
44	chr15:34331800-34332200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr15:34331800-34332200	Flanking Active TSS	Primary T cells from cord blood	blood
46	chr15:34331800-34332200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
47	chr15:34331800-34332200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
48	chr15:34331800-34332200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
49	chr15:34331800-34332200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
50	chr15:34331800-34332200	Flanking Active TSS	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links