Variant report

Variant	rs2237141
Chromosome Location	chr6:15446037-15446038
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15245540..15247199-chr6:15445254..15446807,2	MCF-7	breast:
2	chr6:15265185..15267250-chr6:15444212..15446754,2	K562	blood:
3	chr6:15445585..15449236-chr6:15452197..15455366,5	MCF-7	breast:
4	chr6:15444974..15446606-chr6:15481523..15484287,2	K562	blood:
5	chr6:15445515..15448315-chr6:15457495..15459550,2	MCF-7	breast:
6	chr6:15443726..15445264-chr6:15445305..15447149,2	MCF-7	breast:
7	chr6:15443507..15446694-chr6:15446706..15448980,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000008083	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1474588	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2076055	0.96[CEU][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2237117	0.91[CEU][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2237118	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2237121	0.86[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2237124	0.91[CEU][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2237132	0.91[EUR][1000 genomes]
rs2237140	0.85[CHB][hapmap]
rs2237145	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2237149	0.80[AMR][1000 genomes]
rs2237150	0.82[CEU][hapmap]
rs2237153	0.80[CEU][hapmap]
rs2237156	0.86[CEU][hapmap];0.84[CHB][hapmap];0.86[JPT][hapmap]
rs2237157	0.82[CEU][hapmap]
rs2299045	1.00[CEU][hapmap];0.81[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2299048	0.95[CEU][hapmap];0.96[EUR][1000 genomes]
rs2299053	0.84[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap]
rs2299054	0.86[CEU][hapmap];0.84[CHB][hapmap];0.90[JPT][hapmap]
rs3778652	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs4085876	1.00[CEU][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6459406	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7754701	1.00[CEU][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7754755	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9349979	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9370813	0.84[CEU][hapmap];0.84[CHB][hapmap];0.91[JPT][hapmap]
rs9370817	0.96[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9370819	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9383051	0.81[CEU][hapmap]
rs9383054	0.86[CEU][hapmap];0.84[CHB][hapmap];0.85[JPT][hapmap]
rs9383061	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9476827	1.00[CEU][hapmap];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv949448	chr6:15279490-15449441	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1025512	chr6:15291551-15452395	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv538143	chr6:15291551-15452395	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	esv3430547	chr6:15444773-15448671	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15417000-15452200	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr6:15427000-15450800	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr6:15435000-15448000	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:15435800-15453600	Weak transcription	Fetal Intestine Small	intestine
5	chr6:15435800-15487600	Weak transcription	Colonic Mucosa	Colon
6	chr6:15436000-15447000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr6:15439000-15458000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr6:15439200-15450200	Enhancers	Skeletal Muscle Male	skeletal muscle
9	chr6:15439600-15448200	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr6:15440000-15449400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr6:15440000-15468600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr6:15440600-15446400	Weak transcription	Gastric	stomach
13	chr6:15440600-15448200	Weak transcription	Thymus	Thymus
14	chr6:15440600-15454800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:15441600-15446400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr6:15441600-15447000	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr6:15441600-15451800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr6:15441600-15452200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr6:15441600-15452200	Weak transcription	Dnd41	blood
20	chr6:15441600-15453600	Weak transcription	HSMM	muscle
21	chr6:15441800-15446400	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr6:15441800-15447000	Weak transcription	Primary T cells from cord blood	blood
23	chr6:15441800-15448000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr6:15441800-15449400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr6:15442200-15446600	Enhancers	Brain Substantia Nigra	brain
26	chr6:15442200-15451400	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr6:15442400-15446200	Enhancers	ES-I3 Cell Line	embryonic stem cell
28	chr6:15442400-15446600	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr6:15442600-15446400	Enhancers	HMEC	breast
30	chr6:15442600-15449600	Enhancers	H1 Cell Line	embryonic stem cell
31	chr6:15442800-15446200	Enhancers	Left Ventricle	heart
32	chr6:15442800-15448200	Enhancers	H9 Cell Line	embryonic stem cell
33	chr6:15443000-15446200	Enhancers	Primary hematopoietic stem cells	blood
34	chr6:15443400-15446600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
35	chr6:15443400-15447800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:15443600-15449600	Enhancers	iPS-20b Cell Line	embryonic stem cell
37	chr6:15443600-15451600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr6:15443600-15452000	Weak transcription	K562	blood
39	chr6:15443800-15449200	Weak transcription	HUVEC	blood vessel
40	chr6:15444000-15448800	Weak transcription	NHEK	skin
41	chr6:15444200-15446200	Enhancers	Fetal Stomach	stomach
42	chr6:15444200-15446200	Enhancers	Right Atrium	heart
43	chr6:15444200-15446200	Weak transcription	Stomach Mucosa	stomach
44	chr6:15444200-15449600	Weak transcription	NHDF-Ad	bronchial
45	chr6:15444400-15446600	Enhancers	Breast Myoepithelial Primary Cells	Breast
46	chr6:15444400-15447000	Enhancers	Psoas Muscle	Psoas
47	chr6:15444400-15447200	Enhancers	Brain Cingulate Gyrus	brain
48	chr6:15444400-15452200	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr6:15444400-15453600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr6:15444600-15447800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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