Variant report

Variant	rs17016456
Chromosome Location	chr3:78741148-78741149
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10865571	0.81[AMR][1000 genomes]
rs11127631	0.89[EUR][1000 genomes]
rs11127632	0.88[EUR][1000 genomes]
rs13062510	0.82[JPT][hapmap]
rs13083361	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13093540	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2043661	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2575743	0.85[AMR][1000 genomes]
rs2608018	0.81[JPT][hapmap]
rs3773232	1.00[CEU][hapmap];0.82[CHD][hapmap];0.80[JPT][hapmap];0.83[TSI][hapmap];0.87[EUR][1000 genomes]
rs3773233	1.00[CEU][hapmap];0.80[JPT][hapmap];0.87[EUR][1000 genomes]
rs3773236	0.92[ASW][hapmap];1.00[CEU][hapmap];0.82[CHD][hapmap];0.80[JPT][hapmap];0.85[LWK][hapmap];0.93[MKK][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes]
rs3773241	0.89[EUR][1000 genomes]
rs3773244	0.89[EUR][1000 genomes]
rs6807536	0.87[EUR][1000 genomes]
rs6809232	0.93[MKK][hapmap];0.81[AMR][1000 genomes]
rs7626082	1.00[CEU][hapmap];0.82[CHD][hapmap];0.80[JPT][hapmap];1.00[LWK][hapmap];0.95[TSI][hapmap];0.89[EUR][1000 genomes]
rs984139	0.85[JPT][hapmap];0.85[AMR][1000 genomes]
rs998146	0.86[CHD][hapmap];0.82[JPT][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	nsv1008156	chr3:78444137-78765884	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78654200-78746600	Weak transcription	NHDF-Ad	bronchial
2	chr3:78667200-78751200	Weak transcription	Esophagus	oesophagus
3	chr3:78717800-78745200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr3:78717800-78748400	Weak transcription	Ovary	ovary
5	chr3:78719600-78753000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr3:78720000-78753200	Weak transcription	Brain Hippocampus Middle	brain
7	chr3:78730400-78752600	Weak transcription	Fetal Stomach	stomach
8	chr3:78733800-78744600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr3:78733800-78746600	Weak transcription	Fetal Lung	lung
10	chr3:78733800-78752400	Weak transcription	Fetal Kidney	kidney
11	chr3:78733800-78778000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr3:78735200-78765600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr3:78737400-78741200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr3:78739000-78741800	Weak transcription	HepG2	liver
15	chr3:78740400-78773800	Weak transcription	Brain Germinal Matrix	brain
16	chr3:78740600-78756200	Weak transcription	Muscle Satellite Cultured Cells	--

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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