Variant report

Variant	rs1839297
Chromosome Location	chr3:100786132-100786133
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10936494	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12487287	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12497675	0.80[EUR][1000 genomes]
rs12630437	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12632186	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12637482	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1449319	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1463189	0.87[YRI][hapmap]
rs1529955	0.83[JPT][hapmap]
rs1551040	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1900908	0.84[JPT][hapmap]
rs1972991	0.83[JPT][hapmap]
rs4568178	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4928108	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7611522	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9290276	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9883684	0.80[AMR][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	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	nsv877222	chr3:100715576-101038297	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv591176	chr3:100763611-100799644	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv591177	chr3:100767398-100799644	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv3344837	chr3:100774311-100789597	Flanking Active TSS Enhancers Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100785800-100786200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:100785800-100786200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr3:100785800-100788200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr3:100785800-100788200	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr3:100785800-100788400	Enhancers	Muscle Satellite Cultured Cells	--
6	chr3:100785800-100788400	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:100785800-100788800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:100785800-100788800	Weak transcription	Fetal Stomach	stomach
9	chr3:100785800-100788800	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr3:100785800-100789000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr3:100785800-100789200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:100786000-100786200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:100786000-100786200	Enhancers	NHEK	skin
14	chr3:100786000-100787200	Weak transcription	Hela-S3	cervix
15	chr3:100786000-100787200	Weak transcription	NHDF-Ad	bronchial
16	chr3:100786000-100787200	Weak transcription	NHLF	lung
17	chr3:100786000-100787800	Weak transcription	A549	lung
18	chr3:100786000-100787800	Weak transcription	HSMM	muscle
19	chr3:100786000-100787800	Weak transcription	HUVEC	blood vessel
20	chr3:100786000-100788000	Weak transcription	Fetal Intestine Large	intestine
21	chr3:100786000-100788000	Weak transcription	HSMMtube	muscle
22	chr3:100786000-100788200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr3:100786000-100788200	Weak transcription	Colon Smooth Muscle	Colon
24	chr3:100786000-100788200	Weak transcription	Fetal Intestine Small	intestine
25	chr3:100786000-100788200	Weak transcription	Osteobl	bone
26	chr3:100786000-100788400	Weak transcription	NH-A	brain
27	chr3:100786000-100788800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr3:100786000-100788800	Weak transcription	Duodenum Mucosa	Duodenum
29	chr3:100786000-100788800	Weak transcription	HMEC	breast
30	chr3:100786000-100789000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr3:100786000-100789200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr3:100786000-100791000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr3:100786000-100791000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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