Variant report

Variant	rs12902616
Chromosome Location	chr15:32997175-32997176
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10519737	1.00[CHB][hapmap]
rs11071922	0.81[EUR][1000 genomes]
rs11634570	1.00[CHB][hapmap]
rs11853552	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11857190	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11857997	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12148394	1.00[CHB][hapmap]
rs12708491	0.82[ASN][1000 genomes]
rs12901827	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12906413	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12915554	1.00[CHB][hapmap]
rs1554868	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17816236	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28650777	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28663519	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55659128	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6494598	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422296	chr15:32798938-33221215	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv456785	chr15:32926076-33352989	Genic enhancers Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv568913	chr15:32926076-33352989	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription 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	10 gene(s)	inside rSNPs	diseases
4	nsv482680	chr15:32958401-33154005	Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv456787	chr15:32968923-33023951	Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv568916	chr15:32968923-33023951	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr15:32985000-33002000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr15:32987200-32998800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr15:32994000-32998600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr15:32994000-32999200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr15:32994000-33001200	Weak transcription	Stomach Mucosa	stomach
6	chr15:32995800-32999000	Weak transcription	HepG2	liver
7	chr15:32996200-32999400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr15:32996200-32999600	Enhancers	HSMM	muscle
9	chr15:32996200-32999600	Enhancers	HSMMtube	muscle
10	chr15:32996200-33000000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr15:32996400-32997200	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr15:32996400-32999400	Enhancers	NHLF	lung
13	chr15:32996400-32999600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr15:32996400-32999800	Enhancers	NH-A	brain
15	chr15:32996400-33000400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr15:32996600-32997200	Flanking Active TSS	NHDF-Ad	bronchial
17	chr15:32996600-32997400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr15:32996600-32997600	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr15:32996600-32997600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
20	chr15:32996600-32999800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr15:32996800-32997200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr15:32996800-32997200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr15:32996800-32998200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr15:32996800-32999400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr15:32996800-32999400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr15:32997000-32997200	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr15:32997000-32999600	Enhancers	NHEK	skin
28	chr15:32997000-32999800	Enhancers	HMEC	breast
29	chr15:32997000-32999800	Enhancers	Osteobl	bone
30	chr15:32997000-33001200	Weak transcription	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links