Variant report

Variant	rs172104
Chromosome Location	chr15:40111438-40111439
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11858909	0.85[CEU][hapmap];0.80[EUR][1000 genomes]
rs12900583	0.85[JPT][hapmap]
rs12901142	0.83[JPT][hapmap]
rs12911549	0.83[JPT][hapmap]
rs2411299	0.83[JPT][hapmap]
rs2411309	0.92[JPT][hapmap]
rs2411311	0.83[JPT][hapmap]
rs2631700	0.83[JPT][hapmap]
rs2631701	0.81[JPT][hapmap]
rs275716	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs275717	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs275718	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs275719	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs275721	0.82[AFR][1000 genomes]
rs2898685	0.83[JPT][hapmap]
rs388571	0.86[EUR][1000 genomes]
rs4480779	0.83[JPT][hapmap]
rs4606692	0.83[JPT][hapmap]
rs4924376	0.81[JPT][hapmap]
rs624191	0.92[CEU][hapmap];0.84[AMR][1000 genomes]
rs6492909	0.87[JPT][hapmap]
rs676455	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8033687	0.80[CEU][hapmap]
rs8033902	0.83[JPT][hapmap]
rs951358	0.83[JPT][hapmap]

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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv832979	chr15:40041928-40218407	Genic enhancers Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv832983	chr15:40098766-40248839	Genic enhancers Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40094400-40120400	Weak transcription	HSMMtube	muscle
2	chr15:40096200-40120400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:40096800-40111600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr15:40098800-40112200	Weak transcription	NHDF-Ad	bronchial
5	chr15:40099400-40115000	Weak transcription	NHLF	lung
6	chr15:40099400-40116600	Weak transcription	HSMM	muscle
7	chr15:40102400-40112200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr15:40103000-40121400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr15:40104000-40116600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr15:40107800-40111800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr15:40107800-40112200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr15:40109200-40115200	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr15:40109600-40113600	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr15:40109800-40114600	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr15:40110000-40111800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr15:40110000-40115600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr15:40110200-40112400	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr15:40110200-40112800	Enhancers	H9 Cell Line	embryonic stem cell
19	chr15:40110400-40129800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr15:40110800-40111600	Enhancers	Aorta	Aorta
21	chr15:40111000-40111800	Weak transcription	Osteobl	bone
22	chr15:40111000-40112200	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr15:40111400-40111800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr15:40111400-40112000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr15:40111400-40112400	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr15:40111400-40113200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr15:40111400-40114200	Enhancers	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links