Variant report

Variant	rs6570397
Chromosome Location	chr6:140756209-140756210
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:139694272..139697265-chr6:140755488..140757218,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12523675	0.93[EUR][1000 genomes]
rs17069896	0.81[EUR][1000 genomes]
rs17069919	0.84[EUR][1000 genomes]
rs17069929	0.90[EUR][1000 genomes]
rs17069951	0.97[EUR][1000 genomes]
rs17069962	0.93[EUR][1000 genomes]
rs17069974	0.87[EUR][1000 genomes]
rs17070037	0.84[EUR][1000 genomes]
rs1856759	0.86[EUR][1000 genomes]
rs34350432	0.90[EUR][1000 genomes]
rs55989526	0.97[EUR][1000 genomes]
rs60510685	0.93[EUR][1000 genomes]
rs60519960	0.90[EUR][1000 genomes]
rs6570399	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6901224	0.84[EUR][1000 genomes]
rs6915302	0.97[EUR][1000 genomes]
rs6938047	0.97[EUR][1000 genomes]
rs73777320	0.93[EUR][1000 genomes]
rs7743754	0.84[EUR][1000 genomes]
rs955446	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1015293	chr6:140544956-140798437	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv817390	chr6:140558103-141166039	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv432965	chr6:140692307-140866307	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv604767	chr6:140701423-140816108	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv886694	chr6:140701423-141001420	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv524995	chr6:140733855-140801497	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1029179	chr6:140733884-141051309	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
9	esv3377843	chr6:140749308-140767126	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140748000-140758800	Weak transcription	Ovary	ovary
2	chr6:140754200-140756600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
3	chr6:140754600-140756600	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
4	chr6:140754800-140756600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
5	chr6:140755000-140756400	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
6	chr6:140755200-140757000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:140755400-140756800	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell
8	chr6:140755400-140757200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:140755400-140757200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:140755400-140759400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr6:140755800-140757200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:140755800-140758400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:140756000-140757200	Weak transcription	HMEC	breast
14	chr6:140756000-140757400	Weak transcription	Osteobl	bone
15	chr6:140756200-140756400	Enhancers	Placenta	Placenta
16	chr6:140756200-140757200	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr6:140756200-140758600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:140756200-140759400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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