Variant report

Variant	rs17069080
Chromosome Location	chr5:167170256-167170257
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1023629	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12187148	0.93[CHB][hapmap]
rs12519097	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17069140	0.89[AMR][1000 genomes]
rs17069150	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2337015	0.80[JPT][hapmap]
rs3749800	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56844394	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60893801	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6555767	0.80[JPT][hapmap]
rs6873862	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs719254	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73801366	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7730435	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932627	chr5:166744408-167290959	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1032559	chr5:167070888-167210684	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1027805	chr5:167082800-167285008	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:167158000-167170600	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr5:167158800-167170800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr5:167159200-167171000	Weak transcription	HSMM	muscle
4	chr5:167165200-167170800	Weak transcription	Fetal Lung	lung
5	chr5:167167000-167170600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr5:167167000-167170600	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr5:167167000-167171200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr5:167169800-167170400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr5:167169800-167171600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr5:167170000-167170400	Enhancers	H9 Cell Line	embryonic stem cell
11	chr5:167170000-167170600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr5:167170000-167170800	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr5:167170000-167171000	Enhancers	NHEK	skin
14	chr5:167170000-167171200	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr5:167170000-167171400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr5:167170000-167171600	Enhancers	Hela-S3	cervix
17	chr5:167170000-167171600	Enhancers	NH-A	brain
18	chr5:167170000-167172200	Enhancers	HMEC	breast
19	chr5:167170000-167172400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr5:167170200-167170400	Enhancers	Adipose Nuclei	Adipose
21	chr5:167170200-167170400	Enhancers	Pancreas	Pancrea
22	chr5:167170200-167170600	Enhancers	Muscle Satellite Cultured Cells	--
23	chr5:167170200-167171000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr5:167170200-167171600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr5:167170200-167171600	Enhancers	HSMMtube	muscle
26	chr5:167170200-167171600	Enhancers	Osteobl	bone
27	chr5:167170200-167171800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr5:167170200-167171800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links