Variant report

Variant	rs17069030
Chromosome Location	chr6:139907278-139907279
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:139691228..139695923-chr6:139905258..139909765,7	K562	blood:
2	chr6:139691841..139699576-chr6:139900868..139917289,34	MCF-7	breast:
3	chr6:139691228..139697226-chr6:139904818..139909765,9	K562	blood:
4	chr6:139902793..139905980-chr6:139905991..139910426,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11751645	0.94[CHB][hapmap];0.93[JPT][hapmap];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12660850	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12664553	0.93[CHB][hapmap];0.92[JPT][hapmap];1.00[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17069017	0.94[CHB][hapmap];0.93[JPT][hapmap];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4896477	0.89[CHB][hapmap];0.93[JPT][hapmap]
rs61117481	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73775562	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9321729	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv970368	chr6:139903788-139911187	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:139899600-139908800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr6:139900000-139907400	Weak transcription	Pancreas	Pancrea
3	chr6:139900000-139908800	Weak transcription	Fetal Lung	lung
4	chr6:139900200-139909000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr6:139900400-139908800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:139900400-139908800	Weak transcription	Fetal Intestine Large	intestine
7	chr6:139900800-139908800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr6:139900800-139919200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:139902400-139909200	Weak transcription	Right Ventricle	heart
10	chr6:139902600-139908000	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr6:139904600-139908600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr6:139904800-139907600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:139904800-139907600	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr6:139904800-139907600	Weak transcription	Hela-S3	cervix
15	chr6:139904800-139908200	Weak transcription	HSMM	muscle
16	chr6:139904800-139908200	Weak transcription	NHDF-Ad	bronchial
17	chr6:139904800-139908800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr6:139904800-139908800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr6:139904800-139908800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr6:139905000-139907400	Weak transcription	Fetal Heart	heart
21	chr6:139905000-139907600	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr6:139905000-139908200	Weak transcription	NHLF	lung
23	chr6:139905000-139908600	Weak transcription	HMEC	breast
24	chr6:139905000-139908600	Weak transcription	NH-A	brain
25	chr6:139905000-139908600	Weak transcription	NHEK	skin
26	chr6:139905000-139908800	Weak transcription	Osteobl	bone
27	chr6:139905400-139908200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:139905600-139907400	Weak transcription	HepG2	liver
29	chr6:139906200-139908000	Weak transcription	HUVEC	blood vessel
30	chr6:139906200-139909200	Weak transcription	Placenta	Placenta
31	chr6:139906800-139913400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr6:139906800-139913800	Enhancers	Fetal Kidney	kidney
33	chr6:139907000-139907800	Enhancers	Placenta Amnion	Placenta Amnion
34	chr6:139907000-139907800	Enhancers	K562	blood
35	chr6:139907200-139907400	Weak transcription	Fetal Brain Male	brain
36	chr6:139907200-139907600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
37	chr6:139907200-139907600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr6:139907200-139908200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr6:139907200-139909000	Enhancers	A549	lung
40	chr6:139907200-139919800	Enhancers	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links