Variant report

Variant	rs4712251
Chromosome Location	chr6:15449441-15449442
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11964846	0.92[ASW][hapmap];1.00[CEU][hapmap];0.83[CHD][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.97[TSI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11966626	0.88[EUR][1000 genomes]
rs13192234	1.00[CEU][hapmap];0.91[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs13192892	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs13194650	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13196869	0.90[EUR][1000 genomes]
rs13198780	0.90[EUR][1000 genomes]
rs13202100	1.00[CEU][hapmap];0.89[YRI][hapmap];0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs13202955	1.00[CEU][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs13204842	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13208563	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13209668	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs17455404	1.00[CEU][hapmap];0.91[GIH][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs1967664	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2076056	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2237138	0.95[EUR][1000 genomes]
rs2299043	0.85[ASW][hapmap];1.00[CEU][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.91[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs2299049	0.83[CHB][hapmap]
rs35868206	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3819396	1.00[CEU][hapmap];0.91[GIH][hapmap];0.89[MEX][hapmap];0.82[MKK][hapmap];0.97[TSI][hapmap];0.90[EUR][1000 genomes]
rs4715975	1.00[CEU][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4715979	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4715980	1.00[CEU][hapmap];0.81[CHD][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6899342	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6899343	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6917591	1.00[CEU][hapmap];0.84[CHB][hapmap];0.85[CHD][hapmap];0.91[GIH][hapmap];0.97[TSI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs742099	1.00[CEU][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.90[EUR][1000 genomes]
rs742100	0.95[CEU][hapmap];0.95[GIH][hapmap];0.89[MEX][hapmap];0.97[TSI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7756331	0.90[EUR][1000 genomes]
rs7761778	0.90[EUR][1000 genomes]
rs7769291	0.95[CEU][hapmap];0.91[GIH][hapmap];0.89[MEX][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes]
rs7774429	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9383056	0.93[EUR][1000 genomes]
rs9383062	0.89[AFR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	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
3	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
4	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
5	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

No data

Chromatin state (count:119 , 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	chr6:15435800-15453600	Weak transcription	Fetal Intestine Small	intestine
4	chr6:15435800-15487600	Weak transcription	Colonic Mucosa	Colon
5	chr6:15439000-15458000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr6:15439200-15450200	Enhancers	Skeletal Muscle Male	skeletal muscle
7	chr6:15440000-15468600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr6:15440600-15454800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:15441600-15451800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr6:15441600-15452200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr6:15441600-15452200	Weak transcription	Dnd41	blood
12	chr6:15441600-15453600	Weak transcription	HSMM	muscle
13	chr6:15442200-15451400	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr6:15442600-15449600	Enhancers	H1 Cell Line	embryonic stem cell
15	chr6:15443600-15449600	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr6:15443600-15451600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr6:15443600-15452000	Weak transcription	K562	blood
18	chr6:15444200-15449600	Weak transcription	NHDF-Ad	bronchial
19	chr6:15444400-15452200	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr6:15444400-15453600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr6:15444600-15451400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr6:15444600-15452600	Weak transcription	Duodenum Mucosa	Duodenum
23	chr6:15444600-15477400	Weak transcription	Hela-S3	cervix
24	chr6:15444800-15450200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:15444800-15451600	Weak transcription	GM12878-XiMat	blood
26	chr6:15444800-15452200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:15444800-15452200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr6:15444800-15457200	Weak transcription	Fetal Heart	heart
29	chr6:15444800-15468800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr6:15445400-15449600	Weak transcription	Lung	lung
31	chr6:15445400-15457600	Weak transcription	Fetal Brain Male	brain
32	chr6:15445400-15458600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr6:15445400-15474000	Weak transcription	NH-A	brain
34	chr6:15445600-15449600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr6:15445600-15452800	Weak transcription	HepG2	liver
36	chr6:15445600-15462600	Weak transcription	NHLF	lung
37	chr6:15445800-15449800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr6:15445800-15452200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr6:15445800-15452200	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr6:15445800-15460000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr6:15446000-15452200	Weak transcription	Fetal Lung	lung
42	chr6:15446000-15452200	Weak transcription	Fetal Muscle Trunk	muscle
43	chr6:15446000-15452200	Weak transcription	Fetal Muscle Leg	muscle
44	chr6:15446000-15452400	Weak transcription	Stomach Smooth Muscle	stomach
45	chr6:15446000-15452600	Weak transcription	Liver	Liver
46	chr6:15446000-15456200	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr6:15446000-15459200	Weak transcription	Ovary	ovary
48	chr6:15446000-15462800	Weak transcription	HSMMtube	muscle
49	chr6:15446200-15452400	Weak transcription	Fetal Stomach	stomach
50	chr6:15446400-15449600	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links