Variant report

Variant	rs4934405
Chromosome Location	chr10:90188684-90188685
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10509545	1.00[CEU][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10887830	1.00[CEU][hapmap]
rs11202767	1.00[CEU][hapmap]
rs12356177	1.00[CEU][hapmap]
rs12411841	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12412766	1.00[ASN][1000 genomes]
rs12412793	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12414838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12569919	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs12572530	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.90[ASN][1000 genomes]
rs12573401	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.90[ASN][1000 genomes]
rs1342454	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17096268	0.89[ASW][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17109077	1.00[JPT][hapmap]
rs17111348	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.90[ASN][1000 genomes]
rs17112295	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1813675	1.00[CEU][hapmap]
rs1857157	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4934407	1.00[CEU][hapmap]
rs4934412	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7077844	1.00[CEU][hapmap]

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	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1050587	chr10:90146582-90272627	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv540739	chr10:90146582-90272627	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90186400-90189400	Enhancers	Hela-S3	cervix
2	chr10:90187600-90188800	Enhancers	Adipose Nuclei	Adipose
3	chr10:90187600-90189400	Enhancers	A549	lung
4	chr10:90187800-90188800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr10:90188000-90188800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr10:90188000-90188800	Enhancers	Muscle Satellite Cultured Cells	--
7	chr10:90188000-90188800	Enhancers	NHDF-Ad	bronchial
8	chr10:90188000-90188800	Enhancers	Osteobl	bone
9	chr10:90188000-90189000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr10:90188200-90188800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr10:90188200-90188800	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr10:90188200-90188800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr10:90188200-90188800	Enhancers	Fetal Heart	heart
14	chr10:90188200-90188800	Enhancers	Skeletal Muscle Male	skeletal muscle
15	chr10:90188200-90188800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
16	chr10:90188200-90188800	Enhancers	HMEC	breast
17	chr10:90188200-90188800	Enhancers	NHEK	skin
18	chr10:90188200-90189000	Enhancers	HSMM	muscle
19	chr10:90188400-90189000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr10:90188400-90189000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr10:90188400-90189000	Enhancers	Psoas Muscle	Psoas
22	chr10:90188600-90189000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr10:90188600-90189000	Enhancers	HSMMtube	muscle
24	chr10:90188600-90192800	Weak transcription	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links