Variant report

Variant	rs6034540
Chromosome Location	chr20:16562000-16562001
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:16550509..16554024-chr20:16560848..16563415,3	MCF-7	breast:
2	chr20:16554484..16557263-chr20:16559352..16563570,6	K562	blood:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11906498	1.00[ASN][1000 genomes]
rs16997595	1.00[MEX][hapmap]
rs16997605	1.00[MEX][hapmap]
rs16997922	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2235969	1.00[ASN][1000 genomes]
rs2277775	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6034553	1.00[MEX][hapmap]
rs6044147	1.00[ASN][1000 genomes]
rs6044150	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2762064	chr20:16558260-16568062	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
2	nsv1058496	chr20:16558260-16575531	Weak transcription Enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
3	nsv517032	chr20:16560990-16585314	Weak transcription Enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
4	nsv585650	chr20:16561203-16585314	Weak transcription Enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16556400-16562400	Weak transcription	Left Ventricle	heart
2	chr20:16559400-16562000	Enhancers	Fetal Intestine Large	intestine
3	chr20:16559600-16562000	Enhancers	Duodenum Mucosa	Duodenum
4	chr20:16559600-16562000	Enhancers	Fetal Intestine Small	intestine
5	chr20:16559600-16562200	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr20:16559800-16562000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr20:16559800-16562200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr20:16559800-16564600	Enhancers	Fetal Brain Male	brain
9	chr20:16559800-16567000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr20:16560000-16562000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr20:16560000-16562000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr20:16560000-16562000	Enhancers	Stomach Mucosa	stomach
13	chr20:16560000-16562200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr20:16560000-16562200	Enhancers	NHEK	skin
15	chr20:16560000-16562400	Enhancers	Placenta Amnion	Placenta Amnion
16	chr20:16560000-16562600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr20:16560200-16562200	Enhancers	Fetal Lung	lung
18	chr20:16560800-16562000	Enhancers	Colon Smooth Muscle	Colon
19	chr20:16560800-16562200	Enhancers	Stomach Smooth Muscle	stomach
20	chr20:16561000-16562400	Enhancers	Fetal Muscle Leg	muscle
21	chr20:16561200-16562400	Enhancers	Small Intestine	intestine
22	chr20:16561200-16563000	Weak transcription	Colonic Mucosa	Colon
23	chr20:16561600-16567200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr20:16561800-16562000	Enhancers	Sigmoid Colon	Sigmoid Colon
25	chr20:16561800-16562000	Enhancers	NH-A	brain
26	chr20:16562000-16566600	Weak transcription	Fetal Intestine Large	intestine
27	chr20:16562000-16566600	Weak transcription	Fetal Intestine Small	intestine
28	chr20:16562000-16567200	Weak transcription	Duodenum Mucosa	Duodenum
29	chr20:16562000-16568400	Weak transcription	Sigmoid Colon	Sigmoid Colon

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