Variant report

Variant	rs16887978
Chromosome Location	chr5:57557821-57557822
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:57551727..57557881-chr5:57751726..57757187,9	MCF-7	breast:
2	chr5:57553683..57556320-chr5:57556923..57559469,3	MCF-7	breast:
3	chr5:57555945..57557845-chr5:57750518..57752706,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145632	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs16887987	0.90[AFR][1000 genomes]
rs61413389	0.90[AFR][1000 genomes]
rs73099003	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73100805	0.90[AFR][1000 genomes]
rs73100820	0.84[AFR][1000 genomes]
rs73100830	0.82[AFR][1000 genomes]
rs73100833	0.82[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3489100	chr5:57545689-57669673	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	esv3489101	chr5:57545689-57669673	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv2762520	chr5:57557770-57578659	Enhancers Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57555600-57558000	Enhancers	Fetal Heart	heart
2	chr5:57556000-57558000	Enhancers	NHEK	skin
3	chr5:57556200-57558800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr5:57556400-57561200	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr5:57556600-57558200	Enhancers	A549	lung
6	chr5:57556800-57558400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr5:57557000-57558000	Enhancers	Duodenum Smooth Muscle	Duodenum
8	chr5:57557000-57558000	Enhancers	Fetal Lung	lung
9	chr5:57557000-57558000	Enhancers	NH-A	brain
10	chr5:57557000-57558200	Enhancers	Muscle Satellite Cultured Cells	--
11	chr5:57557000-57558400	Enhancers	Osteobl	bone
12	chr5:57557000-57559000	Enhancers	NHDF-Ad	bronchial
13	chr5:57557200-57558000	Enhancers	HMEC	breast
14	chr5:57557200-57558200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr5:57557200-57558600	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr5:57557200-57558800	Enhancers	NHLF	lung
17	chr5:57557400-57558000	Enhancers	HSMM	muscle
18	chr5:57557400-57558200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr5:57557400-57558400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr5:57557400-57558600	Enhancers	Aorta	Aorta
21	chr5:57557400-57558800	Enhancers	HSMMtube	muscle
22	chr5:57557400-57559000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
23	chr5:57557600-57558200	Enhancers	Adipose Nuclei	Adipose
24	chr5:57557800-57560200	Weak transcription	Right Atrium	heart
25	chr5:57557800-57562200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr5:57557800-57562200	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links