Variant report

Variant	rs13315620
Chromosome Location	chr3:115680748-115680749
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs13075363	0.94[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.84[MEX][hapmap];0.81[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13077497	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13090526	0.93[CEU][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13319721	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28413947	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4277685	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4518123	0.92[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4831211	0.88[JPT][hapmap]
rs4831212	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4831214	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4831216	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4831225	0.85[CHD][hapmap]
rs56265174	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6795148	0.87[YRI][hapmap]
rs9283564	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9289030	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9289031	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9289032	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9818250	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9818948	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9821040	0.86[CHD][hapmap]
rs9824605	0.86[CHD][hapmap]
rs9834036	0.94[EUR][1000 genomes]
rs9841923	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9856549	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.96[TSI][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9865369	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.93[TSI][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9871164	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9871331	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9871905	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931948	chr3:114884574-115802562	Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	esv2760762	chr3:115476222-115807650	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv829685	chr3:115643521-115812913	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv591344	chr3:115672480-115704434	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115650400-115686600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:115678200-115685000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:115679000-115681000	Enhancers	Brain Cingulate Gyrus	brain
4	chr3:115679200-115680800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr3:115679400-115680800	Enhancers	NHDF-Ad	bronchial
6	chr3:115679800-115681000	Enhancers	Adipose Nuclei	Adipose
7	chr3:115679800-115681000	Enhancers	Brain Inferior Temporal Lobe	brain
8	chr3:115679800-115681000	Enhancers	Fetal Brain Female	brain
9	chr3:115679800-115681200	Enhancers	Brain Anterior Caudate	brain
10	chr3:115680000-115680800	Enhancers	Pancreatic Islets	Pancreatic Islet
11	chr3:115680200-115681200	Weak transcription	Fetal Kidney	kidney
12	chr3:115680200-115694600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr3:115680400-115681000	Enhancers	Brain Substantia Nigra	brain
14	chr3:115680400-115681200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr3:115680400-115681800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr3:115680600-115680800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr3:115680600-115681200	Enhancers	Fetal Brain Male	brain
18	chr3:115680600-115681600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links