Variant report

Variant	rs6925279
Chromosome Location	chr6:78077159-78077160
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs13193803	0.85[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13196365	0.83[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13196766	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13200984	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13204564	0.83[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13208046	1.00[EUR][1000 genomes]
rs13208313	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13209939	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13212343	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13214068	0.87[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13217189	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13218318	1.00[ASN][1000 genomes]
rs1361762	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1361845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1418589	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1474778	0.92[EUR][1000 genomes]
rs1738517	0.92[EUR][1000 genomes]
rs1777794	0.83[EUR][1000 genomes]
rs1777802	0.94[EUR][1000 genomes]
rs1935723	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1935736	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2226183	1.00[JPT][hapmap]
rs34016419	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35049111	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4563689	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6920316	0.84[EUR][1000 genomes]
rs71537194	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71537195	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7772083	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7774869	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7775062	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9443397	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9448053	0.86[EUR][1000 genomes];1.00[ASN][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	nsv1017082	chr6:77585310-78258237	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv534282	chr6:77764575-78351994	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1034979	chr6:77781244-78426249	Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv538324	chr6:77781244-78426249	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1015307	chr6:77902559-78352291	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1028259	chr6:78059491-78709871	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv538325	chr6:78059491-78709871	Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:78044200-78078200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr6:78070200-78078200	Weak transcription	Left Ventricle	heart
3	chr6:78072400-78078200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:78072400-78078400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr6:78073600-78078000	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr6:78074200-78078200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr6:78076000-78079000	Active TSS	HUVEC	blood vessel
8	chr6:78076200-78077800	Enhancers	Duodenum Mucosa	Duodenum
9	chr6:78076600-78078000	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr6:78076600-78079000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr6:78076600-78079000	Active TSS	NHEK	skin
12	chr6:78076600-78079200	Active TSS	ES-I3 Cell Line	embryonic stem cell
13	chr6:78076800-78077200	Weak transcription	Fetal Heart	heart
14	chr6:78076800-78078000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:78076800-78078800	Active TSS	Aorta	Aorta
16	chr6:78077000-78077200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:78077000-78077400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
18	chr6:78077000-78079000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:78077000-78079000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr6:78077000-78079000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr6:78077000-78079200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links