Variant report

Variant	rs13060876
Chromosome Location	chr3:110815431-110815432
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs11717706	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11919892	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13061640	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13072462	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13093206	0.80[AFR][1000 genomes]
rs1382075	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1462789	0.82[AFR][1000 genomes]
rs1462790	0.82[AFR][1000 genomes]
rs1462795	0.82[AFR][1000 genomes]
rs1477841	0.81[ASN][1000 genomes]
rs1477842	0.80[AMR][1000 genomes]
rs1477843	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1477847	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1477854	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1477855	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1547518	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1580288	0.81[AFR][1000 genomes]
rs1585629	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1600059	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1871026	0.92[AFR][1000 genomes]
rs1903755	0.82[AFR][1000 genomes]
rs2126710	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2126711	0.83[EUR][1000 genomes]
rs2126712	0.83[EUR][1000 genomes]
rs2126713	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2399373	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2399375	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2895376	0.81[AFR][1000 genomes]
rs4102676	0.82[AFR][1000 genomes]
rs4682033	0.81[AFR][1000 genomes]
rs4682229	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4682230	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4682231	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4682234	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55774570	0.81[AFR][1000 genomes]
rs56668317	0.81[AFR][1000 genomes]
rs6437940	0.82[AFR][1000 genomes]
rs6437947	0.91[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs6437948	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6437952	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs66803420	0.80[ASN][1000 genomes]
rs6781480	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6790828	0.86[AFR][1000 genomes]
rs723023	0.81[AFR][1000 genomes]
rs7430600	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs7612572	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7612667	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7623880	0.81[AFR][1000 genomes]
rs7632375	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7632388	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7653595	0.80[ASN][1000 genomes]
rs9817950	0.84[AFR][1000 genomes]
rs9818950	0.83[EUR][1000 genomes]
rs9821335	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9826064	0.82[AFR][1000 genomes]
rs9828899	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9837377	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9839674	0.82[AFR][1000 genomes]
rs9847598	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9866028	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9876350	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9877855	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	esv1850918	chr3:110685181-110889974	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110799800-110820600	Weak transcription	A549	lung
2	chr3:110800200-110817200	Weak transcription	Gastric	stomach
3	chr3:110802000-110822600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr3:110804000-110817200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr3:110805000-110833600	Weak transcription	NHDF-Ad	bronchial
6	chr3:110807200-110822600	Weak transcription	Fetal Lung	lung
7	chr3:110808600-110817200	Weak transcription	Small Intestine	intestine
8	chr3:110810400-110816400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr3:110812400-110815800	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr3:110813000-110816200	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
11	chr3:110813200-110816000	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
12	chr3:110813400-110816000	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
13	chr3:110813800-110817200	Weak transcription	Colon Smooth Muscle	Colon
14	chr3:110813800-110822600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr3:110814000-110816800	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
16	chr3:110814200-110815800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr3:110814200-110817200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:110814400-110816000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
19	chr3:110814600-110816000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr3:110815200-110816000	ZNF genes & repeats	Fetal Stomach	stomach
21	chr3:110815200-110817200	Weak transcription	Dnd41	blood
22	chr3:110815200-110817600	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr3:110815400-110815600	Enhancers	Psoas Muscle	Psoas
24	chr3:110815400-110816000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr3:110815400-110816000	Enhancers	Ovary	ovary

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