Variant report

Variant	rs9853097
Chromosome Location	chr3:100706552-100706553
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10936427	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs10936459	0.89[YRI][hapmap]
rs10936464	0.84[CHB][hapmap];0.91[LWK][hapmap];0.92[MKK][hapmap];0.86[YRI][hapmap]
rs1349198	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1349199	1.00[JPT][hapmap]
rs1449305	0.84[CHB][hapmap];0.90[MKK][hapmap];0.92[YRI][hapmap]
rs1449306	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1449307	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1449308	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1449309	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843113	0.80[AFR][1000 genomes]
rs16843116	0.83[CHB][hapmap];0.80[AFR][1000 genomes]
rs1965214	0.84[CHB][hapmap];0.94[LWK][hapmap];0.90[MKK][hapmap];0.86[YRI][hapmap];0.80[AFR][1000 genomes]
rs34670326	0.80[AFR][1000 genomes]
rs3732895	0.84[CHB][hapmap];0.97[LWK][hapmap];0.89[MKK][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs3732896	0.84[CHB][hapmap];0.94[LWK][hapmap];0.90[MKK][hapmap];0.86[YRI][hapmap]
rs3806655	0.84[CHB][hapmap];0.91[LWK][hapmap];0.92[MKK][hapmap];0.86[YRI][hapmap]
rs41273569	0.80[AFR][1000 genomes]
rs4928102	0.84[CHB][hapmap];0.91[LWK][hapmap];0.92[MKK][hapmap];0.86[YRI][hapmap]
rs4928104	0.83[CHB][hapmap]
rs66827303	0.85[ASN][1000 genomes]
rs7355920	0.80[CEU][hapmap]
rs749869	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9844950	0.87[CEU][hapmap];0.84[TSI][hapmap];0.83[EUR][1000 genomes]
rs9849371	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9852414	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv931417	chr3:100547347-101183844	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv2757881	chr3:100613387-100776497	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv2759163	chr3:100613387-100776497	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100692600-100711200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:100700400-100711200	Weak transcription	Esophagus	oesophagus
3	chr3:100701800-100711000	Weak transcription	Aorta	Aorta
4	chr3:100702000-100707000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr3:100702000-100707000	Weak transcription	Gastric	stomach
6	chr3:100702000-100710200	Weak transcription	Fetal Muscle Trunk	muscle
7	chr3:100702000-100710800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr3:100702200-100708200	Weak transcription	Colon Smooth Muscle	Colon
9	chr3:100702200-100709800	Weak transcription	Fetal Muscle Leg	muscle
10	chr3:100702200-100711000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr3:100702400-100708800	Weak transcription	Rectal Smooth Muscle	rectum
12	chr3:100702400-100708800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr3:100702400-100710000	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr3:100703400-100707000	Weak transcription	Fetal Stomach	stomach
15	chr3:100703600-100706800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr3:100703600-100709600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr3:100703600-100709600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr3:100703800-100709600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:100703800-100709600	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr3:100705200-100708400	Weak transcription	NHDF-Ad	bronchial
21	chr3:100705200-100709600	Weak transcription	HSMMtube	muscle
22	chr3:100705400-100706800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr3:100705400-100708600	Weak transcription	Osteobl	bone

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