Variant report

Variant	rs9902480
Chromosome Location	chr17:15249734-15249735
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:31364713..31367276-chr17:15248852..15251832,2	K562	blood:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1014027	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs11078289	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1380182	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1380184	0.87[ASN][1000 genomes]
rs16951407	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2168999	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs55969697	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7213020	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7223727	0.85[ASN][1000 genomes]
rs725341	0.83[ASN][1000 genomes]
rs8072399	0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066329	chr17:14983674-15294071	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv543212	chr17:14983674-15294071	Active TSS Genic enhancers Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
3	nsv492304	chr17:15043353-15611753	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
4	nsv916652	chr17:15093600-15856310	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
5	nsv427990	chr17:15154329-15434020	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv907703	chr17:15199907-15370701	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv949172	chr17:15206970-15416808	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:15245400-15251000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr17:15245600-15251000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr17:15246400-15251400	Weak transcription	NHEK	skin
4	chr17:15246400-15254600	Weak transcription	Placenta	Placenta
5	chr17:15246600-15251400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr17:15247400-15251600	Weak transcription	HMEC	breast
7	chr17:15247400-15251600	Weak transcription	HSMMtube	muscle
8	chr17:15247600-15251400	Weak transcription	Osteobl	bone
9	chr17:15247600-15255000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr17:15247800-15251000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr17:15248000-15254400	Weak transcription	NHDF-Ad	bronchial
12	chr17:15249000-15249800	Enhancers	Small Intestine	intestine
13	chr17:15249000-15253400	Enhancers	Fetal Intestine Large	intestine
14	chr17:15249000-15254000	Enhancers	Fetal Intestine Small	intestine
15	chr17:15249200-15249800	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
16	chr17:15249400-15250200	Enhancers	HepG2	liver
17	chr17:15249600-15249800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr17:15249600-15249800	Enhancers	Muscle Satellite Cultured Cells	--
19	chr17:15249600-15249800	Flanking Active TSS	Duodenum Mucosa	Duodenum
20	chr17:15249600-15249800	Enhancers	Sigmoid Colon	Sigmoid Colon
21	chr17:15249600-15249800	Enhancers	Skeletal Muscle Male	skeletal muscle
22	chr17:15249600-15252400	Enhancers	Rectal Mucosa Donor 29	rectum
23	chr17:15249600-15252800	Enhancers	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links