Variant report

Variant	rs4924393
Chromosome Location	chr15:40126643-40126644
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1027232	0.83[JPT][hapmap]
rs11070235	0.97[ASN][1000 genomes]
rs1166729	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11854663	0.98[ASN][1000 genomes]
rs11855441	0.98[ASN][1000 genomes]
rs11858909	0.92[CEU][hapmap];0.88[LWK][hapmap];0.85[MKK][hapmap];0.88[TSI][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs12438821	0.85[ASN][1000 genomes]
rs12442442	0.98[ASN][1000 genomes]
rs12901508	0.88[ASN][1000 genomes]
rs1436274	0.97[ASN][1000 genomes]
rs166703	0.88[ASN][1000 genomes]
rs169328	0.90[ASN][1000 genomes]
rs1836850	0.85[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs1865754	0.96[CHD][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs1968002	0.84[EUR][1000 genomes]
rs2164483	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28565083	0.85[ASN][1000 genomes]
rs35194933	0.81[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs3784391	0.84[EUR][1000 genomes]
rs3784392	0.96[CHD][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs388571	0.85[EUR][1000 genomes]
rs4923842	0.98[ASN][1000 genomes]
rs4923843	0.98[ASN][1000 genomes]
rs4924394	0.98[ASN][1000 genomes]
rs62002492	0.97[ASN][1000 genomes]
rs62002493	0.97[ASN][1000 genomes]
rs7164392	0.88[ASN][1000 genomes]
rs7181712	0.98[ASN][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	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:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40110400-40129800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr15:40120800-40128000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr15:40121600-40128000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr15:40121600-40128000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:40121600-40128400	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr15:40121600-40137200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr15:40123400-40143200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr15:40123600-40162400	Weak transcription	Aorta	Aorta
9	chr15:40123800-40128000	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr15:40123800-40143600	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr15:40124200-40138200	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr15:40124400-40137000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr15:40125200-40126800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr15:40125600-40126800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr15:40125800-40127000	Enhancers	Adipose Nuclei	Adipose
16	chr15:40126200-40127400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr15:40126200-40127400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr15:40126200-40127800	Weak transcription	HUVEC	blood vessel
19	chr15:40126200-40133800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr15:40126400-40127000	Enhancers	Muscle Satellite Cultured Cells	--
21	chr15:40126400-40127000	Enhancers	NH-A	brain
22	chr15:40126400-40127000	Enhancers	NHDF-Ad	bronchial
23	chr15:40126400-40127200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr15:40126400-40127800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr15:40126400-40127800	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr15:40126400-40128000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr15:40126400-40128800	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr15:40126400-40129400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr15:40126400-40133000	Weak transcription	HSMM	muscle
30	chr15:40126400-40134600	Weak transcription	HMEC	breast
31	chr15:40126400-40142600	Weak transcription	NHLF	lung
32	chr15:40126600-40129800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr15:40126600-40130200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr15:40126600-40138000	Weak transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links