Variant report

Variant	rs942509
Chromosome Location	chr6:33875935-33875936
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:10)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:10 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EBF1	chr6:33875910-33876225	GM12878	blood:	n/a	n/a
2	MAFK	chr6:33875829-33876038	HepG2	liver:	n/a	n/a
3	MAX	chr6:33875886-33876052	HepG2	liver:	n/a	n/a
4	USF2	chr6:33875835-33876051	GM12878	blood:	n/a	n/a
5	MAX	chr6:33875882-33876111	NB4	blood:	n/a	n/a
6	USF2	chr6:33875834-33876056	HepG2	liver:	n/a	n/a
7	ARID3A	chr6:33875720-33876129	HepG2	liver:	n/a	n/a
8	USF1	chr6:33875794-33876085	HepG2	liver:	n/a	chr6:33875936-33875947
9	USF1	chr6:33875822-33875988	HepG2	liver:	n/a	chr6:33875936-33875947
10	MAFF	chr6:33875880-33876064	HepG2	liver:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:33869569..33871113-chr6:33874959..33876852,2	K562	blood:
2	chr6:33874668..33878393-chr6:33879974..33881906,3	K562	blood:
3	chr6:33871240..33875960-chr6:33876004..33878253,4	K562	blood:
4	chr6:33868935..33870762-chr6:33875673..33878482,2	MCF-7	breast:
5	chr6:33854576..33856833-chr6:33873252..33875998,2	K562	blood:
6	chr6:33875835..33878450-chr6:33882484..33884000,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000233183	TF binding region

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10807129	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12209273	1.00[AFR][1000 genomes]
rs1324579	0.97[EUR][1000 genomes]
rs1408503	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs1535940	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535941	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535943	0.90[EUR][1000 genomes]
rs1535944	1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535945	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535946	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535947	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1969843	0.94[EUR][1000 genomes]
rs2093907	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2147423	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2147426	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2147427	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2147428	1.00[ASN][1000 genomes]
rs2181916	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477228	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477231	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477232	0.96[EUR][1000 genomes]
rs2477235	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477236	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477237	0.96[EUR][1000 genomes]
rs2499681	0.82[EUR][1000 genomes]
rs2499737	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711364	0.90[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4711365	1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713715	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4713716	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4713717	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4713721	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457747	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6921366	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9296103	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs942506	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs942508	1.00[CHB][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs942510	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs942511	0.83[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916210	chr6:33804111-34144062	Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33865600-33883000	Weak transcription	Esophagus	oesophagus
2	chr6:33868200-33877800	Enhancers	Primary hematopoietic stem cells	blood
3	chr6:33870800-33876600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:33871600-33876400	Enhancers	Fetal Intestine Small	intestine
5	chr6:33872800-33878000	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr6:33872800-33878800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr6:33873000-33876400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:33873000-33876400	Enhancers	Duodenum Mucosa	Duodenum
9	chr6:33873000-33884000	Enhancers	Fetal Thymus	thymus
10	chr6:33873200-33876000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr6:33873200-33876600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr6:33873200-33877400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chr6:33873200-33878200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr6:33873400-33876800	Enhancers	Primary T helper cells fromperipheralblood	blood
15	chr6:33873400-33878000	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr6:33873400-33878000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
17	chr6:33873400-33878400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr6:33873400-33883800	Enhancers	Primary T cells fromperipheralblood	blood
19	chr6:33873600-33876400	Enhancers	Primary T killer memory cells from peripheral blood	blood
20	chr6:33873800-33877000	Enhancers	Primary T cells from cord blood	blood
21	chr6:33873800-33879000	Enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr6:33873800-33882000	Weak transcription	Spleen	Spleen
23	chr6:33874000-33881800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:33874200-33876800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr6:33874200-33882200	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr6:33874200-33889200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr6:33874400-33877800	Enhancers	Liver	Liver
28	chr6:33874600-33876400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr6:33874600-33878000	Enhancers	Fetal Intestine Large	intestine
30	chr6:33874800-33876200	Enhancers	Fetal Kidney	kidney
31	chr6:33875000-33876600	Enhancers	Primary B cells from cord blood	blood
32	chr6:33875000-33876800	Enhancers	GM12878-XiMat	blood
33	chr6:33875400-33881400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr6:33875400-33881400	Weak transcription	Thymus	Thymus
35	chr6:33875600-33876400	Enhancers	HepG2	liver
36	chr6:33875600-33876600	Enhancers	Primary B cells from peripheral blood	blood
37	chr6:33875800-33876200	Enhancers	Primary neutrophils fromperipheralblood	blood
38	chr6:33875800-33876200	Enhancers	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links