Variant report

Variant	rs11586788
Chromosome Location	chr1:159770178-159770179
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:17)
CpG islands
(count:61)
Chromatin interactive
region (count:2)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:17 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr1:159770121-159770186	Spleen_OC	spleen:	n/a	n/a
2	EP300	chr1:159769986-159770364	GM12878	blood:	n/a	n/a
3	SPI1	chr1:159769960-159770314	GM12891	blood:	n/a	n/a
4	SPI1	chr1:159769876-159770378	HL-60	blood:	n/a	n/a
5	CHD2	chr1:159770010-159770268	GM12878	blood:	n/a	n/a
6	RCOR1	chr1:159770067-159770383	GM12878	blood:	n/a	n/a
7	MXI1	chr1:159770065-159770315	GM12878	blood:	n/a	chr1:159770186-159770201
8	EBF1	chr1:159769903-159770320	GM12878	blood:	n/a	chr1:159770044-159770054 chr1:159770042-159770053 chr1:159770044-159770053 chr1:159770042-159770055
9	EBF1	chr1:159770002-159770340	GM12878	blood:	n/a	chr1:159770044-159770054 chr1:159770042-159770053 chr1:159770044-159770053 chr1:159770042-159770055
10	RUNX3	chr1:159770044-159770441	GM12878	blood:	n/a	chr1:159770221-159770230 chr1:159770221-159770230 chr1:159770249-159770258
11	RUNX3	chr1:159770016-159770406	GM12878	blood:	n/a	chr1:159770221-159770230 chr1:159770221-159770230 chr1:159770249-159770258
12	BHLHE40	chr1:159769991-159770383	GM12878	blood:	n/a	n/a
13	EBF1	chr1:159769879-159770427	GM12878	blood:	n/a	chr1:159770044-159770054 chr1:159770042-159770053 chr1:159770044-159770053 chr1:159770042-159770055
14	CUX1	chr1:159770111-159770302	GM12878	blood:	n/a	n/a
15	SPI1	chr1:159770020-159770274	GM12891	blood:	n/a	n/a
16	SPI1	chr1:159769952-159770233	GM12878	blood:	n/a	n/a
17	EP300	chr1:159770000-159770289	GM12878	blood:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr1:159770136-159770186	NHBE	bronchial:	n/a
2	chr1:159770136-159770186	AG10803	skin:	n/a
3	chr1:159770136-159770186	HPAEpiC	pulmonary alveolar:	n/a
4	chr1:159770136-159770186	ovcar-3	ovarian:	n/a
5	chr1:159770136-159770186	A549	lung:	n/a
6	chr1:159770136-159770186	AG09319	gingival:	n/a
7	chr1:159770136-159770186	Hela-S3	cervix:	n/a
8	chr1:159770136-159770186	HUVEC	blood vessel:	n/a
9	chr1:159770136-159770186	HCF	heart:	n/a
10	chr1:159770136-159770186	HRCEpiC	kidney:	n/a
11	chr1:159770136-159770186	PrEC	prostate:	n/a
12	chr1:159770136-159770186	SK-N-SH	brain:	n/a
13	chr1:159770136-159770186	LNCaP	prostate:	n/a
14	chr1:159770136-159770186	GM12892	blood:	n/a
15	chr1:159770136-159770186	K562	blood:	n/a
16	chr1:159770136-159770186	NB4	blood:	n/a
17	chr1:159770136-159770186	GM12878	blood:	n/a
18	chr1:159770136-159770186	MCF-7	breast:	n/a
19	chr1:159770136-159770186	SK-N-MC	brain:	n/a
20	chr1:159770136-159770186	H1-hESC	embryonic stem cell:	embryo
21	chr1:159770136-159770186	IMR90	lung:	fetal
22	chr1:159770136-159770186	HNPCEpiC	eye:	n/a
23	chr1:159770136-159770186	Hepatocyte	liver:	n/a
24	chr1:159770136-159770186	Jurkat	blood:	n/a
25	chr1:159770136-159770186	GM12891	blood:	n/a
26	chr1:159770136-159770186	AG04449	skin:	fetal
27	chr1:159770136-159770186	HRPEpiC	eye:	n/a
28	chr1:159770136-159770186	SKMC	muscle:	n/a
29	chr1:159770136-159770186	HRE	kidney:	n/a
30	chr1:159770136-159770186	RPTEC	kidney:	n/a
31	chr1:159770136-159770186	HCT-116	colon:	n/a
32	chr1:159770136-159770186	BE2_C	brain:	n/a
33	chr1:159770136-159770186	PFSK-1	brain:	n/a
34	chr1:159770136-159770186	HCPEpiC	choroid plexus:	n/a
35	chr1:159770136-159770186	ECC-1	luminal epithelium:	n/a
36	chr1:159770136-159770186	HCM	heart:	n/a
37	chr1:159770136-159770186	BJ	skin:	n/a
38	chr1:159770136-159770186	GM06990	blood:	n/a
39	chr1:159770136-159770186	NHDF-neo	bronchial:	n/a
40	chr1:159770136-159770186	ProgFib	skin:	n/a
41	chr1:159770136-159770186	HEK293	kidney:	embryo
42	chr1:159770136-159770186	AG09309	skin:	n/a
43	chr1:159770136-159770186	T-47D	breast:	n/a
44	chr1:159770136-159770186	CMK	blood:	n/a
45	chr1:159770136-159770186	GM19239	blood:	n/a
46	chr1:159770136-159770186	U87	brain:	n/a
47	chr1:159770136-159770186	AG04450	lung:	fetal
48	chr1:159770136-159770186	HMEC	breast:	n/a
49	chr1:159770136-159770186	HepG2	liver:	n/a
50	chr1:159770136-159770186	NT2-D1	testis:	n/a

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:159768768..159770539-chr1:159892719..159895162,2	K562	blood:
2	chr1:159767187..159770392-chr1:159770720..159774821,3	K562	blood:

No data

Variant related genes	Relation type
FCRL6	TF binding region
FCRL6	CpG island
ENSG00000181036	Chromatin interaction
ENSG00000158710	Chromatin interaction

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

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

rs_ID	r²[population]
rs10430458	1.00[CEU][hapmap]
rs11584071	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11585055	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11585210	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11585323	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11586456	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11586557	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11587247	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12077947	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2494495	1.00[JPT][hapmap]
rs2494514	1.00[CHB][hapmap]
rs2501343	1.00[JPT][hapmap]
rs2501344	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs74124721	0.96[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	nsv1005195	chr1:159452759-159910337	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv521503	chr1:159762120-159795478	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:159768400-159771400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:159768600-159770200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
3	chr1:159768800-159770200	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr1:159768800-159770200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr1:159768800-159770400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:159768800-159770600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr1:159768800-159770600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr1:159768800-159770600	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chr1:159768800-159770800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr1:159768800-159770800	Enhancers	Fetal Thymus	thymus
11	chr1:159768800-159771000	Enhancers	Primary T cells from cord blood	blood
12	chr1:159768800-159771200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chr1:159768800-159771400	Enhancers	Thymus	Thymus
14	chr1:159769000-159770600	Enhancers	GM12878-XiMat	blood
15	chr1:159769000-159770600	Enhancers	Osteobl	bone
16	chr1:159769000-159770800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr1:159769000-159771000	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr1:159769000-159773200	Weak transcription	Placenta	Placenta
19	chr1:159769600-159770200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr1:159769600-159770400	Enhancers	Duodenum Mucosa	Duodenum
21	chr1:159769600-159770600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr1:159769600-159770800	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr1:159769800-159770400	Bivalent Enhancer	Primary B cells from peripheral blood	blood
24	chr1:159769800-159770400	Enhancers	Primary hematopoietic stem cells	blood
25	chr1:159769800-159770400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
26	chr1:159769800-159770400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
27	chr1:159769800-159774400	Weak transcription	NHDF-Ad	bronchial
28	chr1:159770000-159770200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
29	chr1:159770000-159770400	Flanking Active TSS	Primary T cells fromperipheralblood	blood
30	chr1:159770000-159770400	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
31	chr1:159770000-159770600	Bivalent Enhancer	Dnd41	blood
32	chr1:159770000-159772000	Enhancers	Monocytes-CD14+_RO01746	blood
33	chr1:159770000-159774000	Enhancers	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links