Variant report

Variant	rs16873624
Chromosome Location	chr6:45620544-45620545
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	chr6:45611643..45613817-chr6:45619919..45622769,2	K562	blood:

Extended variants
information (count: 7 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12526609	1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12527144	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73735411	0.84[AFR][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	nsv1028393	chr6:44875558-45822335	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv538211	chr6:44875558-45822335	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv427755	chr6:45474631-45627025	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv532024	chr6:45475088-45982640	Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:45612400-45623600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:45614400-45621000	Weak transcription	Right Atrium	heart
3	chr6:45615400-45620800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:45615600-45626000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:45616200-45621000	Weak transcription	Dnd41	blood
6	chr6:45617200-45621600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr6:45617400-45627400	Enhancers	NHDF-Ad	bronchial
8	chr6:45617800-45624200	Enhancers	NHEK	skin
9	chr6:45617800-45627200	Enhancers	NHLF	lung
10	chr6:45618200-45621200	Enhancers	Fetal Lung	lung
11	chr6:45618200-45621800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr6:45618200-45627200	Weak transcription	Gastric	stomach
13	chr6:45618600-45621200	Enhancers	Fetal Stomach	stomach
14	chr6:45618800-45623800	Enhancers	Osteobl	bone
15	chr6:45618800-45627200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr6:45619000-45623200	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr6:45619000-45623800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr6:45619000-45624400	Enhancers	HUVEC	blood vessel
19	chr6:45619200-45621000	Enhancers	Fetal Brain Male	brain
20	chr6:45619200-45621600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr6:45619400-45622200	Weak transcription	A549	lung
22	chr6:45619400-45623800	Enhancers	NH-A	brain
23	chr6:45619600-45621000	Weak transcription	Hela-S3	cervix
24	chr6:45619600-45622200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr6:45619800-45620800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:45619800-45621000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr6:45619800-45621000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:45619800-45621000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr6:45619800-45622200	Weak transcription	HSMMtube	muscle
30	chr6:45620000-45620600	Enhancers	Muscle Satellite Cultured Cells	--
31	chr6:45620000-45620600	Enhancers	HSMM	muscle
32	chr6:45620200-45620600	Weak transcription	HMEC	breast
33	chr6:45620200-45620800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr6:45620200-45620800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr6:45620200-45620800	Enhancers	Colon Smooth Muscle	Colon
36	chr6:45620400-45626600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links