Variant report

Variant	rs2339309
Chromosome Location	chr15:33857317-33857318
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs1025579	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1025581	0.95[CHB][hapmap]
rs1030770	0.88[CHB][hapmap];0.95[JPT][hapmap]
rs1030771	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap]
rs1077409	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs11072521	0.83[CHB][hapmap]
rs11072523	0.83[CHB][hapmap]
rs11072524	0.82[CHB][hapmap]
rs11630933	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs11634054	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs11639327	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs11857690	0.96[YRI][hapmap]
rs12439812	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs12899789	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs12909241	0.95[CHB][hapmap]
rs1369305	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1369306	0.95[CHB][hapmap]
rs1369310	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs1435097	0.86[CHB][hapmap]
rs1435098	0.86[CHB][hapmap]
rs1435099	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1435100	0.86[CHB][hapmap]
rs1435101	0.95[CHB][hapmap]
rs1435102	0.95[CHB][hapmap]
rs1435103	0.87[CHB][hapmap]
rs1435106	0.85[CHB][hapmap]
rs1435118	1.00[CEU][hapmap];0.91[JPT][hapmap]
rs1435121	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs1435122	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs1435123	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1529845	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1529848	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1529849	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs1529850	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1560965	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1560966	0.87[CHB][hapmap]
rs1579584	0.96[YRI][hapmap]
rs1594955	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs16972617	0.93[YRI][hapmap]
rs1865495	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs1865496	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1865499	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2060453	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap]
rs2339307	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2339310	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2572199	0.86[CHB][hapmap]
rs2572200	0.91[CHB][hapmap]
rs2572202	0.91[CHB][hapmap];0.83[JPT][hapmap]
rs2572203	0.86[CHB][hapmap]
rs2643365	0.91[JPT][hapmap]
rs3829476	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3829477	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3829478	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4503763	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4780125	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs606639	0.83[JPT][hapmap]
rs619196	0.91[JPT][hapmap]
rs620150	1.00[CEU][hapmap];0.91[JPT][hapmap]
rs6495169	0.93[YRI][hapmap]
rs674155	0.91[JPT][hapmap]
rs680388	0.91[JPT][hapmap]
rs680851	1.00[CEU][hapmap];0.91[JPT][hapmap]
rs682639	0.91[JPT][hapmap]
rs683484	0.91[JPT][hapmap]
rs683553	1.00[CEU][hapmap];0.91[JPT][hapmap]
rs7164455	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7169363	0.93[YRI][hapmap]
rs7170881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7172763	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs721667	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs8023510	0.88[YRI][hapmap]
rs8025449	0.93[YRI][hapmap]
rs8030946	0.91[JPT][hapmap]
rs8033477	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs8040445	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs8041153	0.92[YRI][hapmap]
rs892771	0.87[CHB][hapmap]
rs892772	0.87[CHB][hapmap]
rs892775	0.90[CHB][hapmap]
rs9302271	0.95[CHB][hapmap];0.85[JPT][hapmap]
rs957467	0.90[CHB][hapmap]
rs967091	0.87[CHB][hapmap]
rs968275	0.91[JPT][hapmap]
rs9744361	1.00[YRI][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	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	esv34041	chr15:33720726-33871487	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	esv34037	chr15:33732616-34049083	Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33827400-33877200	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr15:33833200-33858400	Weak transcription	Fetal Muscle Trunk	muscle
3	chr15:33844800-33860200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr15:33846400-33857600	Weak transcription	Fetal Muscle Leg	muscle
5	chr15:33846400-33872000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr15:33851800-33857800	Weak transcription	Brain Anterior Caudate	brain
7	chr15:33853800-33857400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr15:33855200-33858000	Strong transcription	Stomach Smooth Muscle	stomach
9	chr15:33857000-33857400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr15:33857000-33857400	Weak transcription	Aorta	Aorta
11	chr15:33857200-33858400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast

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