Variant report

Variant	rs1878298
Chromosome Location	chr15:33741322-33741323
allele	A/G
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:22)

rs_ID	r²[population]
rs1155606	0.91[CHB][hapmap];0.88[ASN][1000 genomes]
rs1560968	0.91[ASW][hapmap];0.85[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.81[JPT][hapmap];0.80[MKK][hapmap];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1878299	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2339275	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2459470	0.91[CHB][hapmap];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2572192	0.81[CEU][hapmap];0.91[CHB][hapmap];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2572193	0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2596156	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2596157	0.81[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2596163	0.81[CEU][hapmap]
rs2596236	0.95[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs2676017	0.84[CEU][hapmap];0.90[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2676025	0.83[ASN][1000 genomes]
rs2676085	0.85[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.90[MEX][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2676086	0.83[ASW][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.85[ASN][1000 genomes]
rs2676087	1.00[ASW][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.84[MEX][hapmap];0.83[MKK][hapmap];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2676088	0.91[CHB][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2676089	0.91[CHB][hapmap];0.88[ASN][1000 genomes]
rs2676090	0.85[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7165065	0.95[CHB][hapmap];0.91[CHD][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs8024555	0.83[ASN][1000 genomes]
rs930300	0.91[CHB][hapmap];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533346	chr15:33469439-33809641	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv832964	chr15:33608771-33784018	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	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
4	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
5	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:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33732800-33746600	Weak transcription	Aorta	Aorta
2	chr15:33733400-33746000	Weak transcription	Brain Anterior Caudate	brain
3	chr15:33739200-33742000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr15:33740000-33743400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr15:33740200-33742200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr15:33740200-33742200	Enhancers	Skeletal Muscle Male	skeletal muscle
7	chr15:33740400-33741600	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr15:33740400-33741600	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr15:33740400-33744600	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr15:33740600-33741400	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr15:33740600-33741400	Enhancers	HMEC	breast
12	chr15:33740600-33741800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr15:33740800-33741400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr15:33740800-33742200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr15:33740800-33742400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr15:33740800-33743400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr15:33740800-33744400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr15:33741000-33741400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr15:33741000-33741400	Enhancers	Pancreas	Pancrea
20	chr15:33741000-33741800	Enhancers	Fetal Muscle Trunk	muscle
21	chr15:33741000-33742200	Enhancers	Esophagus	oesophagus
22	chr15:33741000-33743200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr15:33741000-33744400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr15:33741200-33741600	Flanking Active TSS	NHEK	skin
25	chr15:33741200-33742200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr15:33741200-33742800	Weak transcription	Placenta Amnion	Placenta Amnion

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