Variant report

Variant	rs17027739
Chromosome Location	chr4:152561958-152561959
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10002512	0.90[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10002750	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10010061	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10014639	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10015816	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10017489	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10020313	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10027105	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10032584	1.00[AMR][1000 genomes]
rs10034746	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10212987	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10213361	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10471071	1.00[AMR][1000 genomes]
rs10471072	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13353741	1.00[AMR][1000 genomes]
rs13435896	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027673	0.82[AFR][1000 genomes]
rs17027675	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027703	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027710	0.89[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027725	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027738	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027742	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027757	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027762	1.00[AMR][1000 genomes]
rs17027764	1.00[AMR][1000 genomes]
rs17027767	1.00[AMR][1000 genomes]
rs28404927	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28417352	1.00[AMR][1000 genomes]
rs28454065	1.00[AMR][1000 genomes]
rs28461656	1.00[AMR][1000 genomes]
rs28494961	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28539581	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28540596	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28558989	1.00[AMR][1000 genomes]
rs28591074	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28595853	1.00[AMR][1000 genomes]
rs28618192	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28634312	1.00[AMR][1000 genomes]
rs28656459	1.00[AMR][1000 genomes]
rs28722860	1.00[AMR][1000 genomes]
rs28788179	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28798801	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28822494	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28836879	0.89[AFR][1000 genomes]
rs28837860	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28884810	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57562339	1.00[AMR][1000 genomes]
rs61653326	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72954810	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72954898	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72956911	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72956926	1.00[AMR][1000 genomes]
rs72956927	1.00[AMR][1000 genomes]
rs9307882	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9307883	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9307884	1.00[AMR][1000 genomes]
rs9307885	1.00[AMR][1000 genomes]
rs9683731	1.00[AMR][1000 genomes]
rs9994720	1.00[AMR][1000 genomes]
rs9997778	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2755535	chr4:152549395-152609395	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152499200-152567600	Weak transcription	Pancreas	Pancrea
2	chr4:152542400-152565600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr4:152544000-152570600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr4:152544200-152566400	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr4:152544400-152570600	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr4:152545600-152578600	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr4:152546400-152570600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr4:152549000-152567000	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr4:152549200-152562000	Weak transcription	NHEK	skin
10	chr4:152549400-152562200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr4:152550600-152567600	Weak transcription	Fetal Intestine Small	intestine
12	chr4:152551000-152570800	Weak transcription	Lung	lung
13	chr4:152551000-152570800	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr4:152553400-152565600	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr4:152554000-152573800	Weak transcription	Psoas Muscle	Psoas
16	chr4:152559000-152562000	Weak transcription	HMEC	breast
17	chr4:152559400-152562000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr4:152559600-152567200	Weak transcription	Duodenum Mucosa	Duodenum
19	chr4:152559600-152567600	Weak transcription	Colonic Mucosa	Colon
20	chr4:152560400-152563800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr4:152561000-152567600	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr4:152561000-152570600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr4:152561000-152579400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr4:152561200-152562000	Enhancers	Left Ventricle	heart
25	chr4:152561400-152562000	Weak transcription	Hela-S3	cervix
26	chr4:152561400-152562600	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr4:152561400-152570600	Weak transcription	Gastric	stomach
28	chr4:152561600-152563600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr4:152561600-152563800	Enhancers	Skeletal Muscle Female	skeletal muscle
30	chr4:152561800-152562600	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr4:152561800-152562600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr4:152561800-152562600	Enhancers	Skeletal Muscle Male	skeletal muscle
33	chr4:152561800-152562800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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