Variant report

Variant	rs10761364
Chromosome Location	chr9:97768286-97768287
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:97441331..97443986-chr9:97767707..97769717,2	MCF-7	breast:
2	chr9:97587607..97589933-chr9:97767549..97770278,2	MCF-7	breast:
3	chr9:97671639..97694679-chr9:97760418..97786060,142	MCF-7	breast:
4	chr9:97763979..97769403-chr9:97805439..97812937,10	MCF-7	breast:
5	chr9:97561245..97563934-chr9:97767178..97770063,2	MCF-7	breast:
6	chr9:97765581..97769970-chr9:97809027..97814302,8	MCF-7	breast:
7	chr9:97767984..97771413-chr9:97863181..97865279,3	MCF-7	breast:
8	chr9:97684190..97685424-chr9:97768217..97769091,3	MCF-7	breast:
9	chr9:97566294..97568352-chr9:97767960..97769924,2	MCF-7	breast:
10	chr9:97674991..97691307-chr9:97751911..97773298,151	MCF-7	breast:
11	chr9:97763635..97773461-chr9:97847821..97861280,36	MCF-7	breast:
12	chr1:149856773..149859757-chr9:97767567..97770095,2	MCF-7	breast:
13	chr9:97768005..97769861-chr9:98936527..98938758,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000207617	Chromatin interaction
ENSG00000178096	Chromatin interaction
ENSG00000184260	Chromatin interaction
ENSG00000184270	Chromatin interaction
ENSG00000148120	Chromatin interaction
ENSG00000184678	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1004373	0.91[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10117370	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10119512	0.91[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.94[GIH][hapmap];0.87[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10121760	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10123819	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1020963	0.81[CEU][hapmap];0.94[CHB][hapmap];0.84[CHD][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10512253	0.82[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10761366	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10761368	0.81[CEU][hapmap];0.94[CHB][hapmap];0.81[CHD][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10761369	0.91[CEU][hapmap];0.85[TSI][hapmap];0.88[EUR][1000 genomes]
rs10993427	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10993435	0.81[CHB][hapmap]
rs10993449	0.81[CHB][hapmap]
rs10993456	0.82[TSI][hapmap]
rs10993464	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10993467	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1113102	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12339639	0.82[TSI][hapmap]
rs1412488	0.81[CEU][hapmap];0.94[CHB][hapmap];0.84[CHD][hapmap];0.90[MEX][hapmap];0.92[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1564234	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1571894	0.91[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1571895	0.91[CEU][hapmap];0.81[CHB][hapmap];0.89[CHD][hapmap];0.94[GIH][hapmap];0.87[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2061800	0.88[CHB][hapmap];0.87[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2404295	0.81[CEU][hapmap];0.83[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2404302	0.91[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs2404305	0.91[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];0.87[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2404456	0.91[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2896816	0.81[CHB][hapmap]
rs3802454	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3802456	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4537362	0.91[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4743979	0.91[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4743980	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4743981	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4743982	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4743984	0.89[ASW][hapmap];1.00[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.94[GIH][hapmap];0.87[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4744422	0.81[CEU][hapmap];0.94[CHB][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4744423	1.00[CEU][hapmap];1.00[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];0.98[ASN][1000 genomes]
rs4744424	0.91[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4744425	0.91[CEU][hapmap];0.88[CHB][hapmap];0.86[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4744426	0.91[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];0.87[JPT][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4744428	0.92[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4744430	1.00[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4744431	0.82[CEU][hapmap];0.93[CHB][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4744432	0.82[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4744433	0.82[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4744435	0.91[CEU][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4744436	0.82[CEU][hapmap];0.88[AMR][1000 genomes]
rs6479588	0.81[CEU][hapmap];0.94[CHB][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6479591	0.91[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];0.87[JPT][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6479592	0.91[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7020709	0.91[CEU][hapmap];0.87[JPT][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7021351	0.91[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];0.87[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7022452	0.91[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];0.87[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7042271	0.81[CHB][hapmap]
rs7043705	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7048786	0.91[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.94[GIH][hapmap];0.87[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7048941	0.91[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.94[GIH][hapmap];0.87[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7851173	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.92[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7854831	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7857679	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7862156	0.83[ASW][hapmap];1.00[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];0.87[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7863291	0.91[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];0.87[JPT][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7865144	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7871218	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7873479	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7873567	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs962229	0.88[CHB][hapmap];0.87[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[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	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
2	esv3393598	chr9:97765956-97768504	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases
3	esv3399008	chr9:97766206-97768629	Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Enhancers Genic enhancers	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10761364	hCG_2003663	Cis_1M	lymphoblastoid	RTeQTL
rs10761364	FOXE1	cis	parietal	SCAN
rs10761364	OGN	cis	parietal	SCAN

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97765000-97768600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr9:97765000-97770400	Active TSS	Rectal Mucosa Donor 31	rectum
3	chr9:97765200-97770600	Active TSS	Aorta	Aorta
4	chr9:97765800-97770800	Active TSS	Pancreatic Islets	Pancreatic Islet
5	chr9:97765800-97772600	Active TSS	Stomach Smooth Muscle	stomach
6	chr9:97766000-97768600	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr9:97766000-97768800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr9:97766000-97769000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
9	chr9:97766000-97769000	Active TSS	GM12878-XiMat	blood
10	chr9:97766000-97770000	Active TSS	Breast Myoepithelial Primary Cells	Breast
11	chr9:97766000-97770200	Active TSS	Duodenum Mucosa	Duodenum
12	chr9:97766000-97770400	Active TSS	Ovary	ovary
13	chr9:97766000-97770400	Active TSS	Skeletal Muscle Male	skeletal muscle
14	chr9:97766000-97770400	Active TSS	Skeletal Muscle Female	skeletal muscle
15	chr9:97766000-97770400	Active TSS	NHLF	lung
16	chr9:97766000-97770600	Active TSS	Brain Inferior Temporal Lobe	brain
17	chr9:97766000-97770600	Active TSS	Rectal Mucosa Donor 29	rectum
18	chr9:97766000-97770800	Active TSS	Colonic Mucosa	Colon
19	chr9:97766000-97771000	Active TSS	Colon Smooth Muscle	Colon
20	chr9:97766200-97768400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
21	chr9:97766200-97768800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr9:97766200-97768800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr9:97766200-97769000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr9:97766200-97769400	Active TSS	Placenta	Placenta
25	chr9:97766200-97770400	Active TSS	Left Ventricle	heart
26	chr9:97766200-97770600	Active TSS	Brain Hippocampus Middle	brain
27	chr9:97766200-97771000	Active TSS	Right Ventricle	heart
28	chr9:97766200-97771200	Active TSS	Fetal Kidney	kidney
29	chr9:97766200-97771800	Active TSS	Right Atrium	heart
30	chr9:97766400-97768400	Active TSS	Fetal Adrenal Gland	Adrenal Gland
31	chr9:97766400-97768400	Active TSS	Fetal Lung	lung
32	chr9:97766400-97768400	Active TSS	Placenta Amnion	Placenta Amnion
33	chr9:97766400-97768600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
34	chr9:97766400-97768600	Active TSS	NH-A	brain
35	chr9:97766400-97768600	Active TSS	NHEK	skin
36	chr9:97766400-97768800	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr9:97766400-97768800	Active TSS	Fetal Intestine Large	intestine
38	chr9:97766400-97768800	Active TSS	Fetal Intestine Small	intestine
39	chr9:97766400-97768800	Active TSS	Hela-S3	cervix
40	chr9:97766400-97769000	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr9:97766400-97769000	Active TSS	Sigmoid Colon	Sigmoid Colon
42	chr9:97766400-97769000	Active TSS	Small Intestine	intestine
43	chr9:97766400-97769800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr9:97766400-97769800	Active TSS	Rectal Smooth Muscle	rectum
45	chr9:97766400-97769800	Active TSS	HepG2	liver
46	chr9:97766400-97770000	Active TSS	Pancreas	Pancrea
47	chr9:97766400-97770000	Active TSS	HSMMtube	muscle
48	chr9:97766400-97770400	Active TSS	Psoas Muscle	Psoas
49	chr9:97766400-97771000	Active TSS	Brain Angular Gyrus	brain
50	chr9:97766400-97771000	Active TSS	Brain Cingulate Gyrus	brain

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