Variant report

Variant	rs13212086
Chromosome Location	chr6:15634136-15634137
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15511307..15514182-chr6:15633610..15635656,2	K562	blood:
2	chr6:15510693..15512807-chr6:15634035..15635656,2	K562	blood:
3	chr6:15631159..15634142-chr6:15637366..15640748,3	K562	blood:
4	chr6:15624573..15630362-chr6:15631588..15637195,8	K562	blood:
5	chr6:15631736..15634432-chr6:15661180..15663811,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000047579	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11756738	0.81[CEU][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13192791	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13198195	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13198335	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13217513	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1988856	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2056942	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2619531	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2619551	0.81[EUR][1000 genomes]
rs6903266	0.86[CEU][hapmap];0.82[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6906100	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6918834	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6937379	0.81[EUR][1000 genomes]
rs71533648	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs760665	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs760666	0.86[CEU][hapmap];0.81[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7738263	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7745876	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7745907	0.82[AMR][1000 genomes]
rs7758659	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7760564	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7765924	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7768128	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs875462	0.86[CEU][hapmap];0.90[EUR][1000 genomes]
rs9296983	0.86[CEU][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9296986	0.87[CEU][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9383063	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9396593	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9464796	0.87[CEU][hapmap];0.84[AMR][1000 genomes];0.89[EUR][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	nsv428136	chr6:15595640-15781241	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv2755670	chr6:15624762-15736008	Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15597000-15641600	Weak transcription	Spleen	Spleen
2	chr6:15600000-15660400	Weak transcription	Hela-S3	cervix
3	chr6:15610600-15640200	Weak transcription	Aorta	Aorta
4	chr6:15611800-15641800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr6:15614800-15641600	Weak transcription	Lung	lung
6	chr6:15615000-15652600	Weak transcription	Colonic Mucosa	Colon
7	chr6:15615200-15641000	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr6:15615200-15642200	Weak transcription	Thymus	Thymus
9	chr6:15615200-15662200	Weak transcription	Gastric	stomach
10	chr6:15615400-15643000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr6:15615600-15639000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr6:15616800-15638600	Weak transcription	Psoas Muscle	Psoas
13	chr6:15616800-15662000	Weak transcription	Placenta	Placenta
14	chr6:15616800-15662200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:15621800-15662200	Weak transcription	Pancreas	Pancrea
16	chr6:15622200-15637800	Weak transcription	Small Intestine	intestine
17	chr6:15622200-15638800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr6:15622200-15641000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr6:15622200-15641600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr6:15622200-15641800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr6:15622200-15643600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr6:15622200-15649200	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr6:15623600-15641000	Weak transcription	Brain Hippocampus Middle	brain
24	chr6:15623600-15643200	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr6:15623800-15638800	Weak transcription	Fetal Muscle Leg	muscle
26	chr6:15623800-15639000	Weak transcription	Left Ventricle	heart
27	chr6:15623800-15662000	Weak transcription	Stomach Smooth Muscle	stomach
28	chr6:15624400-15641600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr6:15624400-15642000	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr6:15626400-15639000	Weak transcription	Rectal Smooth Muscle	rectum
31	chr6:15626400-15641000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr6:15626600-15637200	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr6:15627400-15636000	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr6:15627800-15636000	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr6:15627800-15636000	Weak transcription	Primary B cells from peripheral blood	blood
36	chr6:15627800-15636000	Weak transcription	Fetal Thymus	thymus
37	chr6:15627800-15637400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr6:15628600-15662000	Weak transcription	NHLF	lung
39	chr6:15629400-15634800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr6:15629400-15635600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr6:15629400-15635800	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr6:15629400-15636400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
43	chr6:15629400-15637000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr6:15629400-15640400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr6:15629400-15641600	Weak transcription	Fetal Stomach	stomach
46	chr6:15629400-15641800	Weak transcription	HMEC	breast
47	chr6:15629400-15641800	Weak transcription	NHEK	skin
48	chr6:15629400-15642200	Weak transcription	NHDF-Ad	bronchial
49	chr6:15629400-15642600	Weak transcription	Fetal Lung	lung
50	chr6:15629400-15649200	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links