Variant report

Variant	rs17012119
Chromosome Location	chr4:87776786-87776787
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:87769723..87774057-chr4:87775131..87777452,3	MCF-7	breast:
2	chr4:87776224..87780188-chr4:87811150..87813505,4	MCF-7	breast:
3	chr4:87755836..87758517-chr4:87776083..87778116,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163633	Chromatin interaction
ENSG00000145283	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10000891	1.00[JPT][hapmap]
rs10001010	1.00[JPT][hapmap]
rs10001986	1.00[JPT][hapmap]
rs10002511	1.00[JPT][hapmap]
rs10003989	1.00[JPT][hapmap]
rs10009758	1.00[JPT][hapmap]
rs10009789	1.00[JPT][hapmap]
rs10013114	1.00[JPT][hapmap]
rs10020590	1.00[JPT][hapmap]
rs10023163	1.00[JPT][hapmap]
rs10024860	1.00[JPT][hapmap]
rs10028550	1.00[JPT][hapmap]
rs10029565	1.00[JPT][hapmap]
rs10033029	1.00[JPT][hapmap]
rs10033679	1.00[JPT][hapmap]
rs10470933	1.00[JPT][hapmap]
rs10516780	1.00[JPT][hapmap]
rs10516783	1.00[JPT][hapmap]
rs10516784	1.00[JPT][hapmap]
rs11097118	1.00[JPT][hapmap]
rs11097119	1.00[JPT][hapmap]
rs11947598	1.00[JPT][hapmap]
rs12171330	1.00[JPT][hapmap]
rs12171331	1.00[JPT][hapmap]
rs12171414	1.00[JPT][hapmap]
rs12171415	1.00[JPT][hapmap]
rs12171445	1.00[JPT][hapmap]
rs12171459	1.00[JPT][hapmap]
rs12498653	1.00[JPT][hapmap]
rs12498681	1.00[JPT][hapmap]
rs12499471	1.00[JPT][hapmap]
rs12499575	1.00[JPT][hapmap]
rs12500797	1.00[JPT][hapmap]
rs12504551	1.00[JPT][hapmap]
rs12507034	1.00[JPT][hapmap]
rs12508339	1.00[JPT][hapmap]
rs12508746	1.00[JPT][hapmap]
rs12509560	1.00[JPT][hapmap]
rs12512858	1.00[JPT][hapmap]
rs13109164	1.00[JPT][hapmap]
rs13109738	1.00[JPT][hapmap]
rs13110760	1.00[JPT][hapmap]
rs13111757	1.00[JPT][hapmap]
rs13112139	1.00[JPT][hapmap]
rs13118632	1.00[JPT][hapmap]
rs13136201	1.00[JPT][hapmap]
rs13136651	1.00[JPT][hapmap]
rs13148078	1.00[JPT][hapmap]
rs13150561	1.00[JPT][hapmap]
rs1420620	1.00[JPT][hapmap]
rs17454432	1.00[JPT][hapmap]
rs17454655	1.00[JPT][hapmap]
rs17694358	1.00[JPT][hapmap]
rs17750575	1.00[JPT][hapmap]
rs6817630	1.00[JPT][hapmap]
rs7664147	1.00[JPT][hapmap]
rs7664860	1.00[JPT][hapmap]
rs7698481	1.00[JPT][hapmap]
rs7699564	1.00[JPT][hapmap]
rs9884784	1.00[JPT][hapmap]
rs9985645	1.00[JPT][hapmap]
rs9990536	1.00[JPT][hapmap]
rs9994213	1.00[JPT][hapmap]
rs9995978	1.00[JPT][hapmap]
rs9997453	1.00[JPT][hapmap]
rs9999866	1.00[JPT][hapmap]

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	nsv594787	chr4:87221827-87888667	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1013308	chr4:87769694-87870168	Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87769600-87776800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr4:87769800-87778600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr4:87770200-87776800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr4:87770400-87778600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr4:87771600-87776800	Weak transcription	Right Atrium	heart
6	chr4:87771600-87785600	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr4:87771800-87776800	Weak transcription	Left Ventricle	heart
8	chr4:87771800-87776800	Weak transcription	Hela-S3	cervix
9	chr4:87775800-87779200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr4:87776200-87777000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr4:87776200-87778800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr4:87776200-87779000	Enhancers	HMEC	breast
13	chr4:87776200-87779200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr4:87776200-87779600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr4:87776400-87776800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr4:87776400-87779200	Enhancers	NHEK	skin
17	chr4:87776400-87779600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr4:87776600-87777200	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
19	chr4:87776600-87778000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr4:87776600-87779000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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