Variant report

Variant	rs17075400
Chromosome Location	chr6:146168788-146168789
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:146135644..146137594-chr6:146167351..146169555,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000235652	Chromatin interaction
ENSG00000118496	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs17054153	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075370	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075385	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075389	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075404	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075411	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075414	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075446	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17075465	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[ASN][1000 genomes]
rs17075499	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17075501	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17075511	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs17075515	1.00[CHB][hapmap];1.00[GIH][hapmap];0.88[ASN][1000 genomes]
rs17075527	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075530	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075544	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075546	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075548	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075552	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075604	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs17724957	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17725045	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17725081	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17725112	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17725154	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17797949	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17798033	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17798183	1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs17798189	1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs17798207	1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1970304	0.94[ASN][1000 genomes]
rs6570721	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs73579444	0.88[ASN][1000 genomes]
rs999859	1.00[AFR][1000 genomes];1.00[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	nsv1034226	chr6:146071068-146306942	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv830835	chr6:146145148-146287473	Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146150600-146171200	Weak transcription	Aorta	Aorta
2	chr6:146150600-146174000	Weak transcription	Right Ventricle	heart
3	chr6:146159600-146171400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr6:146160400-146171400	Weak transcription	Primary T cells from cord blood	blood
5	chr6:146163200-146169600	Weak transcription	Fetal Stomach	stomach
6	chr6:146163800-146175000	Weak transcription	Left Ventricle	heart
7	chr6:146164600-146169200	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr6:146164600-146170000	Weak transcription	Monocytes-CD14+_RO01746	blood
9	chr6:146164600-146171400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:146164800-146170400	Weak transcription	Adipose Nuclei	Adipose
11	chr6:146166400-146171200	Weak transcription	Osteobl	bone
12	chr6:146166600-146171200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:146166600-146171200	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr6:146166800-146171200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr6:146167400-146170000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr6:146167400-146171200	Weak transcription	Psoas Muscle	Psoas
17	chr6:146168200-146168800	Enhancers	Fetal Intestine Large	intestine

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