Variant report

Variant	rs2072819
Chromosome Location	chr6:15374962-15374963
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:15372367..15375616-chr6:15378718..15380959,5	K562	blood:
2	chr6:15370293..15372055-chr6:15374139..15376123,3	K562	blood:

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

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

rs_ID	r²[population]
rs11757092	0.93[YRI][hapmap]
rs2072820	0.90[CHB][hapmap]
rs2237149	0.90[EUR][1000 genomes]
rs2237150	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs2237152	0.88[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2237153	0.93[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2237156	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs2237157	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2237159	0.85[CHB][hapmap];0.97[YRI][hapmap];0.86[AFR][1000 genomes]
rs2237160	0.90[CHB][hapmap]
rs2299045	0.80[CEU][hapmap]
rs2299048	0.84[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs2299053	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs2299054	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs2299059	0.85[CHB][hapmap]
rs4085876	0.80[CEU][hapmap]
rs6905698	0.90[CHB][hapmap]
rs6924733	0.90[CHB][hapmap]
rs9349978	0.93[EUR][1000 genomes]
rs9358059	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9358060	0.93[EUR][1000 genomes]
rs9370813	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs9383051	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9383054	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs9464785	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9464786	0.95[CHB][hapmap]
rs9464787	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.97[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9476820	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9476827	0.80[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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
5	nsv538142	chr6:15243960-15404893	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	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
7	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
8	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
9	nsv1019927	chr6:15351240-15419257	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
10	nsv538145	chr6:15351240-15419257	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15327800-15375800	Weak transcription	Aorta	Aorta
2	chr6:15341800-15378400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr6:15364600-15390200	Weak transcription	HepG2	liver
4	chr6:15365000-15402800	Weak transcription	Dnd41	blood
5	chr6:15365800-15378600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:15365800-15384800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr6:15366400-15382600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:15366600-15375800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:15366600-15376000	Weak transcription	Osteobl	bone
10	chr6:15366600-15377200	Weak transcription	Stomach Mucosa	stomach
11	chr6:15366600-15378600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:15366600-15384800	Weak transcription	NH-A	brain
13	chr6:15366600-15385000	Weak transcription	Fetal Brain Female	brain
14	chr6:15367000-15375200	Weak transcription	Fetal Muscle Leg	muscle
15	chr6:15367000-15376200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr6:15367000-15379200	Weak transcription	Brain Germinal Matrix	brain
17	chr6:15367000-15384800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr6:15367200-15375200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:15367400-15384600	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr6:15367400-15389400	Weak transcription	Ovary	ovary
21	chr6:15367800-15376000	Weak transcription	Liver	Liver
22	chr6:15368200-15375200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr6:15370200-15381600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr6:15370200-15381600	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr6:15370400-15375200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr6:15370400-15375800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr6:15370400-15376600	Weak transcription	Lung	lung
28	chr6:15370400-15376800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr6:15370400-15376800	Weak transcription	Esophagus	oesophagus
30	chr6:15370400-15378800	Weak transcription	Brain Cingulate Gyrus	brain
31	chr6:15370400-15379400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr6:15370400-15383000	Weak transcription	Spleen	Spleen
33	chr6:15370400-15384800	Weak transcription	Pancreas	Pancrea
34	chr6:15371200-15384800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr6:15371400-15376600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr6:15371600-15382600	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr6:15371800-15375800	Weak transcription	Colon Smooth Muscle	Colon
38	chr6:15371800-15381800	Weak transcription	Brain Angular Gyrus	brain
39	chr6:15371800-15389000	Weak transcription	Adipose Nuclei	Adipose
40	chr6:15372000-15375800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:15372000-15376400	Weak transcription	Rectal Smooth Muscle	rectum
42	chr6:15372000-15386600	Weak transcription	Fetal Intestine Small	intestine
43	chr6:15372200-15375400	Weak transcription	Fetal Stomach	stomach
44	chr6:15372200-15378600	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr6:15372200-15379200	Weak transcription	Brain Anterior Caudate	brain
46	chr6:15372400-15376600	Weak transcription	Stomach Smooth Muscle	stomach
47	chr6:15372400-15379400	Weak transcription	Fetal Lung	lung
48	chr6:15372800-15377600	Enhancers	Skeletal Muscle Female	skeletal muscle
49	chr6:15373000-15375400	Enhancers	Fetal Heart	heart
50	chr6:15373200-15375000	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links