Variant report

Variant	rs16887874
Chromosome Location	chr6:56269517-56269518
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	chr6:56267636..56269580-chr6:56284501..56287415,2	K562	blood:
2	chr6:56268256..56270109-chr6:56270332..56272934,2	MCF-7	breast:

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs16887804	1.00[AFR][1000 genomes]
rs16887983	1.00[AFR][1000 genomes]
rs4715632	1.00[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	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv830666	chr6:56243743-56419599	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1022577	chr6:56263674-56289698	Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56253000-56282600	Weak transcription	Aorta	Aorta
2	chr6:56265200-56270000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:56265200-56270200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:56265200-56271200	Weak transcription	Stomach Mucosa	stomach
5	chr6:56265400-56270000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr6:56265400-56270000	Weak transcription	Gastric	stomach
7	chr6:56267200-56271800	Enhancers	HepG2	liver
8	chr6:56267800-56270000	Enhancers	Colon Smooth Muscle	Colon
9	chr6:56268000-56270400	Enhancers	Rectal Smooth Muscle	rectum
10	chr6:56268200-56270000	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr6:56268400-56269600	Enhancers	HSMMtube	muscle
12	chr6:56268400-56269800	Enhancers	Duodenum Smooth Muscle	Duodenum
13	chr6:56268400-56270000	Enhancers	Fetal Lung	lung
14	chr6:56268400-56270400	Enhancers	Liver	Liver
15	chr6:56268400-56270400	Enhancers	Fetal Stomach	stomach
16	chr6:56268400-56271400	Enhancers	Pancreatic Islets	Pancreatic Islet
17	chr6:56268600-56269600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
18	chr6:56268600-56269600	Enhancers	NHDF-Ad	bronchial
19	chr6:56268600-56271600	Enhancers	Hela-S3	cervix
20	chr6:56268800-56270200	Weak transcription	Small Intestine	intestine
21	chr6:56269000-56270000	Weak transcription	Ovary	ovary
22	chr6:56269000-56270000	Weak transcription	Psoas Muscle	Psoas
23	chr6:56269000-56271400	Weak transcription	Fetal Heart	heart
24	chr6:56269200-56269600	Enhancers	Muscle Satellite Cultured Cells	--
25	chr6:56269200-56270000	Enhancers	A549	lung
26	chr6:56269200-56270600	Enhancers	Fetal Intestine Large	intestine
27	chr6:56269200-56270600	Enhancers	Fetal Intestine Small	intestine
28	chr6:56269200-56272600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr6:56269400-56270400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr6:56269400-56270600	Enhancers	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links