Variant report

Variant	rs6959899
Chromosome Location	chr7:40749194-40749195
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10250246	0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs10486813	0.94[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs10951638	0.93[ASN][1000 genomes]
rs1146040	0.92[ASN][1000 genomes]
rs1203725	1.00[CHB][hapmap];0.87[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1203726	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1203727	0.95[CHB][hapmap];0.88[JPT][hapmap];0.92[ASN][1000 genomes]
rs1203728	0.95[CHB][hapmap];0.88[JPT][hapmap];0.93[ASN][1000 genomes]
rs1203730	1.00[CHB][hapmap];0.87[JPT][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1203733	0.95[CHB][hapmap];0.88[JPT][hapmap];0.92[ASN][1000 genomes]
rs1203734	0.95[CHB][hapmap];0.88[JPT][hapmap];0.92[ASN][1000 genomes]
rs13235741	0.93[ASN][1000 genomes]
rs17171762	1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17171763	0.90[ASN][1000 genomes]
rs17171764	0.90[ASN][1000 genomes]
rs1921750	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2011636	0.81[ASN][1000 genomes]
rs35428147	0.86[ASN][1000 genomes]
rs4050983	1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57655172	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62451217	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62451219	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6462987	0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs6965055	0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs6978898	0.95[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs73310278	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73310281	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7808606	0.89[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]

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	nsv1030648	chr7:40218618-41032599	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1025605	chr7:40623026-40789063	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv538823	chr7:40623026-40789063	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1019833	chr7:40649369-40767377	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv538824	chr7:40649369-40767377	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv887988	chr7:40685811-40782572	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:40740600-40750600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr7:40746000-40749400	Enhancers	HMEC	breast
3	chr7:40746000-40749600	Enhancers	NHEK	skin
4	chr7:40747800-40749400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr7:40748000-40749200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr7:40748000-40749200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr7:40748000-40751200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr7:40748400-40749200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr7:40748400-40749200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr7:40748400-40749200	Enhancers	Osteobl	bone
11	chr7:40748400-40749400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr7:40748600-40749400	Enhancers	NHDF-Ad	bronchial
13	chr7:40748800-40749400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr7:40749000-40749400	Enhancers	Aorta	Aorta
15	chr7:40749000-40754000	Weak transcription	Muscle Satellite Cultured Cells	--

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