Variant report

Variant	rs6935719
Chromosome Location	chr6:5695545-5695546
allele	A/G
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	RFX5	chr6:5695261-5696387	IMR90	lung:	n/a	n/a
2	CEBPB	chr6:5695346-5695786	IMR90	lung:	n/a	n/a
3	POLR2A	chr6:5695421-5695909	U87	brain:	n/a	n/a
4	POLR2A	chr6:5695337-5695899	U87	brain:	n/a	n/a
5	FOXP2	chr6:5695394-5695797	SK-N-MC	brain:	n/a	n/a
6	MYC	chr6:5695488-5695758	MCF10A-Er-Src	breast:	n/a	chr6:5695644-5695653
7	FOS	chr6:5695540-5695744	MCF10A-Er-Src	breast:	n/a	chr6:5695642-5695653 chr6:5695643-5695652
8	ZNF274	chr6:5694846-5695559	GM08714	blood:	n/a	n/a
9	FOS	chr6:5695446-5695912	HUVEC	blood vessel:	n/a	chr6:5695642-5695653 chr6:5695643-5695652
10	MYC	chr6:5695540-5695756	HUVEC	blood vessel:	n/a	chr6:5695644-5695653
11	RUNX3	chr6:5695490-5695870	GM12878	blood:	n/a	n/a
12	POLR2A	chr6:5695443-5695613	ProgFib	skin:	n/a	n/a
13	SETDB1	chr6:5695433-5695851	U2OS	brain:	n/a	n/a
14	MXI1	chr6:5695302-5695790	IMR90	lung:	n/a	n/a
15	POLR2A	chr6:5695443-5695863	SK-N-MC	brain:	n/a	n/a
16	FOS	chr6:5695481-5695886	MCF10A-Er-Src	breast:	n/a	chr6:5695642-5695653 chr6:5695643-5695652
17	STAT3	chr6:5695434-5695619	MCF10A-Er-Src	breast:	n/a	n/a
18	MYC	chr6:5695545-5695784	MCF10A-Er-Src	breast:	n/a	chr6:5695644-5695653

Variant related genes	Relation type
ENSG00000270174	TF binding region

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1001568	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1005521	0.80[ASN][1000 genomes]
rs11752777	0.81[ASN][1000 genomes]
rs12210617	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12216327	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4140654	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6918561	0.86[AMR][1000 genomes]
rs6918675	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs760675	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7739358	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7742697	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7746913	0.84[AMR][1000 genomes]
rs878988	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9328328	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9378439	0.89[ASN][1000 genomes]
rs9378983	0.89[ASN][1000 genomes]
rs9502329	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][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	esv3473790	chr6:5692573-5707035	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv3473791	chr6:5692573-5707035	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv823407	chr6:5692735-5706712	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv970201	chr6:5693538-5699453	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5672200-5705800	Weak transcription	Thymus	Thymus
2	chr6:5673800-5701200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr6:5673800-5709800	Weak transcription	Stomach Smooth Muscle	stomach
4	chr6:5678000-5709400	Weak transcription	Pancreas	Pancrea
5	chr6:5684800-5696000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr6:5684800-5706000	Weak transcription	Ovary	ovary
7	chr6:5685000-5698600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr6:5691400-5698200	Weak transcription	Spleen	Spleen
9	chr6:5692800-5701400	Weak transcription	Right Atrium	heart
10	chr6:5693000-5696000	Weak transcription	Fetal Intestine Small	intestine
11	chr6:5694200-5695800	Weak transcription	NH-A	brain
12	chr6:5694800-5696400	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr6:5694800-5696400	Enhancers	Fetal Thymus	thymus
14	chr6:5695000-5695800	Enhancers	Primary T cells fromperipheralblood	blood
15	chr6:5695000-5696200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr6:5695000-5696400	Enhancers	Dnd41	blood
17	chr6:5695000-5696600	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr6:5695200-5695600	Enhancers	Monocytes-CD14+_RO01746	blood
19	chr6:5695200-5696200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr6:5695200-5696200	Enhancers	Primary T helper cells PMA-I stimulated	--
21	chr6:5695200-5696200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr6:5695200-5696400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:5695200-5696400	Enhancers	Primary B cells from peripheral blood	blood
24	chr6:5695200-5696400	Flanking Active TSS	Primary T cells from cord blood	blood
25	chr6:5695200-5696400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
26	chr6:5695200-5696400	Flanking Active TSS	NHDF-Ad	bronchial
27	chr6:5695200-5696600	Enhancers	Muscle Satellite Cultured Cells	--
28	chr6:5695200-5700000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr6:5695400-5695600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:5695400-5695800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr6:5695400-5695800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr6:5695400-5695800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
33	chr6:5695400-5695800	Enhancers	Primary T killer memory cells from peripheral blood	blood
34	chr6:5695400-5695800	Enhancers	Fetal Stomach	stomach
35	chr6:5695400-5695800	Enhancers	GM12878-XiMat	blood
36	chr6:5695400-5695800	Enhancers	HSMM	muscle
37	chr6:5695400-5696000	Enhancers	HSMMtube	muscle
38	chr6:5695400-5696200	Enhancers	Primary T helper naive cells from peripheral blood	blood
39	chr6:5695400-5696200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr6:5695400-5696200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
41	chr6:5695400-5696200	Enhancers	Duodenum Mucosa	Duodenum
42	chr6:5695400-5696200	Enhancers	Sigmoid Colon	Sigmoid Colon
43	chr6:5695400-5696200	Flanking Active TSS	Osteobl	bone
44	chr6:5695400-5696400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr6:5695400-5696400	Enhancers	Primary hematopoietic stem cells short term culture	blood
46	chr6:5695400-5696400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr6:5695400-5696400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr6:5695400-5696400	Enhancers	HUVEC	blood vessel
49	chr6:5695400-5696800	Enhancers	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links