Variant report

Variant	rs6776647
Chromosome Location	chr3:156987695-156987696
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1027603	0.96[CEU][hapmap];0.94[CHB][hapmap];0.89[GIH][hapmap];0.83[JPT][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10936085	0.88[CHB][hapmap]
rs10936086	0.83[CHB][hapmap]
rs10936087	0.83[CHB][hapmap]
rs12486304	0.88[CEU][hapmap]
rs12486427	0.83[CHB][hapmap]
rs12496879	0.96[CEU][hapmap];0.94[CHB][hapmap];0.83[JPT][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12638732	0.83[CHB][hapmap]
rs1403107	0.88[CEU][hapmap]
rs1456097	0.83[CHB][hapmap]
rs1500916	0.88[CHB][hapmap];1.00[GIH][hapmap];0.84[TSI][hapmap]
rs1500920	1.00[CHB][hapmap];0.83[JPT][hapmap]
rs1500927	0.87[CEU][hapmap]
rs1546261	0.96[CEU][hapmap];0.94[CHB][hapmap];0.89[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1568609	0.94[CHB][hapmap];0.97[GIH][hapmap];0.83[JPT][hapmap]
rs1568612	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1585080	0.83[CHB][hapmap]
rs1840668	0.83[CHB][hapmap]
rs2047649	0.88[CHB][hapmap]
rs2088810	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2088815	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.92[JPT][hapmap];1.00[TSI][hapmap]
rs3816528	0.83[CHB][hapmap]
rs4640512	0.83[CHB][hapmap]
rs4680351	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4680359	0.88[CHB][hapmap]
rs4680360	0.82[GIH][hapmap]
rs6441117	0.83[EUR][1000 genomes]
rs6441121	0.94[CHB][hapmap]
rs6441128	0.81[CHB][hapmap]
rs6765828	0.80[EUR][1000 genomes]
rs6771109	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6780399	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6801110	0.88[CHB][hapmap]
rs7614339	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7617727	0.83[CHB][hapmap]
rs7631556	0.95[CEU][hapmap];0.94[CHB][hapmap];0.83[JPT][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7636413	0.88[CEU][hapmap];0.95[TSI][hapmap]
rs7639254	0.83[CHB][hapmap]
rs7643340	0.88[CEU][hapmap]
rs885094	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs924517	0.94[CHB][hapmap];0.82[ASN][1000 genomes]
rs9289980	0.82[ASN][1000 genomes]
rs9857875	0.93[CHB][hapmap];0.83[JPT][hapmap]
rs9867618	0.94[CHB][hapmap]
rs9871290	0.83[CHB][hapmap]
rs988587	0.88[CHB][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];0.83[TSI][hapmap]
rs988588	0.94[CHB][hapmap];0.89[GIH][hapmap];0.83[JPT][hapmap];0.81[TSI][hapmap]
rs9990136	0.94[CHB][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];0.84[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv877687	chr3:156924793-157044184	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6776647	SSR3	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156967200-156989000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr3:156967200-157000000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr3:156967200-157000000	Weak transcription	NH-A	brain
4	chr3:156967200-157007800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:156979600-156997000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:156981200-156991400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:156981600-156991000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr3:156982400-156992800	Weak transcription	Osteobl	bone
9	chr3:156982400-156997000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr3:156984200-156998200	Weak transcription	HUVEC	blood vessel
11	chr3:156987600-156989200	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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