Variant report

Variant	rs11770584
Chromosome Location	chr7:25300895-25300896
allele	G/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	CEBPB	chr7:25300729-25301046	IMR90	lung:	n/a	n/a
2	POLR2A	chr7:25300633-25301067	SK-N-MC	brain:	n/a	n/a
3	RUNX3	chr7:25300731-25300987	GM12878	blood:	n/a	n/a
4	RFX5	chr7:25300844-25300930	K562	blood:	n/a	n/a
5	SPI1	chr7:25300554-25301006	HL-60	blood:	n/a	n/a
6	FOS	chr7:25300717-25301038	MCF10A-Er-Src	breast:	n/a	n/a
7	RUNX3	chr7:25300645-25301051	GM12878	blood:	n/a	n/a
8	FOS	chr7:25300696-25301034	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr7:25300355..25300946-chr7:25353811..25354586,2	MCF-7	breast:
2	chr7:25299530..25302516-chr7:25303123..25304940,2	K562	blood:
3	chr7:25300000..25302398-chr7:25671728..25673940,2	K562	blood:

Variant related genes	Relation type
ENSG00000202233	TF binding region
ENSG00000202233	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1008929	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11769704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11770932	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11773410	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12530684	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12538631	1.00[ASN][1000 genomes]
rs13223273	1.00[ASN][1000 genomes]
rs17304305	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2391107	1.00[ASN][1000 genomes]
rs34537571	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6946398	1.00[CEU][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6961642	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs73092102	1.00[ASN][1000 genomes]
rs9784962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv606424	chr7:24982529-25466521	Genic enhancers Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
2	nsv606426	chr7:25254125-25621579	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:25295200-25301000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr7:25295800-25301000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr7:25298800-25302200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr7:25299000-25302000	Enhancers	Colon Smooth Muscle	Colon
5	chr7:25299200-25301000	Enhancers	Brain Hippocampus Middle	brain
6	chr7:25299200-25301400	Enhancers	Fetal Kidney	kidney
7	chr7:25299200-25301600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr7:25299200-25301600	Enhancers	Fetal Lung	lung
9	chr7:25299200-25302200	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr7:25299200-25303800	Enhancers	Primary neutrophils fromperipheralblood	blood
11	chr7:25299400-25301400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr7:25299400-25302000	Enhancers	Fetal Thymus	thymus
13	chr7:25299600-25301200	Weak transcription	Fetal Intestine Small	intestine
14	chr7:25299600-25301400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr7:25299600-25302000	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr7:25299600-25302000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr7:25299800-25301000	Enhancers	Dnd41	blood
18	chr7:25299800-25301000	Weak transcription	NH-A	brain
19	chr7:25299800-25302200	Weak transcription	Fetal Muscle Trunk	muscle
20	chr7:25300000-25301400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr7:25300200-25301400	Weak transcription	Fetal Heart	heart
22	chr7:25300200-25301600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr7:25300200-25301600	Weak transcription	Brain Anterior Caudate	brain
24	chr7:25300400-25301000	Enhancers	Brain Substantia Nigra	brain
25	chr7:25300400-25301000	Enhancers	Fetal Brain Female	brain
26	chr7:25300400-25301200	Bivalent Enhancer	Primary B cells from cord blood	blood
27	chr7:25300400-25301200	Enhancers	NHEK	skin
28	chr7:25300400-25301400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr7:25300400-25301400	Weak transcription	Brain Germinal Matrix	brain
30	chr7:25300400-25301800	Enhancers	Primary hematopoietic stem cells short term culture	blood
31	chr7:25300400-25301800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr7:25300600-25301000	Active TSS	Primary T cells fromperipheralblood	blood
33	chr7:25300600-25301200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr7:25300600-25301200	Enhancers	Primary B cells from peripheral blood	blood
35	chr7:25300600-25301200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
36	chr7:25300600-25301200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr7:25300600-25301200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr7:25300600-25301200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr7:25300600-25301200	Active TSS	Rectal Mucosa Donor 31	rectum
40	chr7:25300600-25301400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr7:25300600-25301400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
42	chr7:25300600-25301400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
43	chr7:25300600-25301400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
44	chr7:25300600-25301600	Enhancers	HUES64 Cell Line	embryonic stem cell
45	chr7:25300600-25301600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr7:25300800-25301000	Enhancers	Primary hematopoietic stem cells	blood
47	chr7:25300800-25301000	Enhancers	Primary T helper naive cells from peripheral blood	blood
48	chr7:25300800-25301000	Enhancers	Muscle Satellite Cultured Cells	--
49	chr7:25300800-25301000	Active TSS	Primary mononuclear cells fromperipheralblood	Blood
50	chr7:25300800-25301000	Enhancers	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links