Variant report

Variant	rs6786854
Chromosome Location	chr3:110926523-110926524
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1477841	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1477842	0.85[CEU][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1477843	0.85[CEU][hapmap];0.92[TSI][hapmap]
rs1477846	0.85[CEU][hapmap];0.92[TSI][hapmap]
rs1477847	0.85[CEU][hapmap]
rs1477848	0.85[CEU][hapmap];0.92[TSI][hapmap]
rs2126713	0.85[CEU][hapmap];0.80[MEX][hapmap];0.92[TSI][hapmap]
rs2399373	0.85[CEU][hapmap];0.92[TSI][hapmap]
rs2399375	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs4682034	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4682229	0.85[CEU][hapmap];0.80[MEX][hapmap];0.92[TSI][hapmap]
rs4682230	0.85[CEU][hapmap];0.80[MEX][hapmap];0.92[TSI][hapmap]
rs4682231	0.85[CEU][hapmap]
rs4682234	0.85[CEU][hapmap];0.80[MEX][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes]
rs4682238	0.85[CEU][hapmap]
rs4682240	0.95[ASN][1000 genomes]
rs6437948	0.85[CEU][hapmap];0.80[MEX][hapmap];0.92[TSI][hapmap];0.86[EUR][1000 genomes]
rs6437952	0.86[EUR][1000 genomes]
rs6437953	0.85[CEU][hapmap];0.92[TSI][hapmap]
rs6437955	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66803420	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs67209183	0.94[EUR][1000 genomes]
rs6794645	0.85[CEU][hapmap]
rs7430600	0.85[CEU][hapmap];0.92[CHD][hapmap];0.95[GIH][hapmap];0.80[MEX][hapmap];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7610760	0.85[CEU][hapmap]
rs7612667	0.85[CEU][hapmap];0.80[MEX][hapmap];0.81[MKK][hapmap];0.92[TSI][hapmap]
rs7620372	0.82[CEU][hapmap]
rs7623847	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7623880	0.85[CEU][hapmap]
rs7653595	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9821335	0.85[CEU][hapmap];0.80[MEX][hapmap];0.92[TSI][hapmap]
rs9828899	0.85[CEU][hapmap];0.80[MEX][hapmap];0.92[TSI][hapmap]
rs9866028	0.85[CEU][hapmap];0.80[MEX][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes]
rs9876350	0.85[CEU][hapmap]

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	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv829675	chr3:110885605-111101858	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv877339	chr3:110889974-111070554	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv3945	chr3:110922029-110967244	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110835600-110929600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr3:110869400-110929000	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:110881000-110928000	Weak transcription	Osteobl	bone
4	chr3:110894000-110934400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:110894200-110929600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:110899200-110935200	Weak transcription	Lung	lung
7	chr3:110903400-110929200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr3:110910200-110927200	Weak transcription	Rectal Smooth Muscle	rectum
9	chr3:110913400-110932000	Weak transcription	Fetal Heart	heart
10	chr3:110914400-110928400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr3:110915000-110934200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr3:110915400-110928000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr3:110915600-110929800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:110916000-110928200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:110917000-110933400	Weak transcription	Placenta	Placenta
16	chr3:110917200-110929000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr3:110917600-110928000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:110919400-110928800	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr3:110919400-110928800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr3:110919400-110929000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr3:110919400-110929000	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr3:110919400-110929600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:110919600-110928800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr3:110920000-110945800	Weak transcription	HSMMtube	muscle
25	chr3:110922400-110928400	Weak transcription	HSMM	muscle
26	chr3:110922600-110929000	Weak transcription	NHDF-Ad	bronchial
27	chr3:110922600-110933600	Weak transcription	Aorta	Aorta
28	chr3:110922800-110928400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr3:110922800-110928400	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr3:110922800-110932000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr3:110924200-110928000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr3:110924400-110929200	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr3:110924400-110929600	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr3:110924400-110929800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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