Variant report

Variant	rs3759034
Chromosome Location	chr11:65558997-65558998
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:8)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:8 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MTA3	chr11:65558866-65559701	GM12878	blood:	n/a	n/a
2	SP1	chr11:65558846-65561180	HCT-116	colon:	n/a	chr11:65560997-65561011 chr11:65560729-65560739 chr11:65561004-65561018 chr11:65559344-65559358 chr11:65559950-65559964
3	POLR2A	chr11:65558995-65559787	GM12878	blood:	n/a	n/a
4	ELF1	chr11:65558750-65559614	GM12878	blood:	n/a	n/a
5	SIN3AK20	chr11:65558870-65561268	MCF-7	breast:	n/a	n/a
6	POLR2A	chr11:65558963-65559740	GM12892	blood:	n/a	n/a
7	IRF4	chr11:65558964-65559603	GM12878	blood:	n/a	n/a
8	POLR2A	chr11:65558968-65559723	GM12892	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr11:65478230..65480937-chr11:65556981..65559484,3	MCF-7	breast:
2	chr11:65544951..65562337-chr11:65623093..65630859,34	MCF-7	breast:
3	chr11:65547507..65549362-chr11:65557835..65559340,2	K562	blood:
4	chr11:65558959..65560820-chr11:65769398..65772357,2	MCF-7	breast:
5	chr11:65556556..65561389-chr11:65623769..65628916,7	MCF-7	breast:
6	chr11:65416969..65422455-chr11:65556396..65561611,5	MCF-7	breast:
7	chr11:65558660..65561085-chr11:65567276..65569327,2	K562	blood:
8	chr11:65552279..65555050-chr11:65558664..65561977,4	K562	blood:
9	chr11:65547140..65547661-chr11:65558943..65559629,2	MCF-7	breast:
10	chr11:65557488..65562536-chr11:65655379..65657877,5	K562	blood:
11	chr11:65557488..65560218-chr11:65655379..65657652,3	K562	blood:
12	chr11:65479410..65482518-chr11:65556440..65559162,4	MCF-7	breast:
13	chr11:65477923..65479953-chr11:65556662..65559648,2	K562	blood:

No data

Variant related genes	Relation type
OVOL1-AS1	TF binding region
OVOL1	TF binding region
ENSG00000213445	Chromatin interaction
ENSG00000172977	Chromatin interaction
ENSG00000175602	Chromatin interaction
ENSG00000172500	Chromatin interaction
ENSG00000175376	Chromatin interaction
ENSG00000175334	Chromatin interaction
ENSG00000175827	Chromatin interaction
ENSG00000172818	Chromatin interaction
ENSG00000172732	Chromatin interaction
ENSG00000172757	Chromatin interaction
ENSG00000254470	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11227287	0.84[AFR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11227301	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12361032	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12362011	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12800057	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12801669	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34946581	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35696016	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35727622	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs489574	0.87[ASN][1000 genomes]
rs56019505	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs565427	0.82[ASN][1000 genomes]
rs61895678	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7116758	0.83[AMR][1000 genomes]
rs7951057	0.88[EUR][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	nsv897718	chr11:65140209-65577516	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1003 gene(s)	inside rSNPs	diseases
2	nsv897736	chr11:65335705-65676516	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	227 gene(s)	inside rSNPs	diseases
3	nsv430401	chr11:65419324-65788024	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	224 gene(s)	inside rSNPs	diseases
4	nsv897758	chr11:65490756-65564035	Flanking Bivalent TSS/Enh Active TSS Weak transcription Genic enhancers Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
5	nsv897760	chr11:65545306-65559266	Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:65555800-65562000	Enhancers	HMEC	breast
2	chr11:65556000-65559400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr11:65556000-65562000	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr11:65556200-65561600	Enhancers	Pancreas	Pancrea
5	chr11:65556400-65561600	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr11:65556400-65561800	Enhancers	Stomach Mucosa	stomach
7	chr11:65557400-65563800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr11:65557600-65559200	Flanking Active TSS	Colonic Mucosa	Colon
9	chr11:65557800-65559800	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr11:65557800-65559800	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
11	chr11:65557800-65560000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
12	chr11:65557800-65561200	Enhancers	Sigmoid Colon	Sigmoid Colon
13	chr11:65557800-65561600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr11:65558000-65559200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr11:65558000-65560600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr11:65558000-65562000	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr11:65558000-65564400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr11:65558200-65560200	Enhancers	Primary hematopoietic stem cells short term culture	blood
19	chr11:65558200-65560600	Enhancers	Placenta	Placenta
20	chr11:65558200-65560800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr11:65558200-65561800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr11:65558200-65562600	Genic enhancers	Fetal Intestine Small	intestine
23	chr11:65558200-65564800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr11:65558200-65568800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr11:65558400-65559000	Enhancers	Duodenum Mucosa	Duodenum
26	chr11:65558400-65559000	Active TSS	Rectal Smooth Muscle	rectum
27	chr11:65558400-65559200	Enhancers	Small Intestine	intestine
28	chr11:65558400-65560400	Enhancers	GM12878-XiMat	blood
29	chr11:65558400-65561200	Enhancers	Placenta Amnion	Placenta Amnion
30	chr11:65558400-65561800	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr11:65558400-65566200	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr11:65558600-65559000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr11:65558600-65559000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr11:65558600-65559200	Weak transcription	Gastric	stomach
35	chr11:65558600-65560000	Flanking Active TSS	Esophagus	oesophagus
36	chr11:65558600-65560200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr11:65558600-65560400	Enhancers	NHEK	skin
38	chr11:65558600-65562600	Genic enhancers	Fetal Intestine Large	intestine
39	chr11:65558800-65559200	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr11:65558800-65559200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr11:65558800-65559400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
42	chr11:65558800-65559600	Enhancers	Lung	lung
43	chr11:65558800-65559800	Enhancers	Primary monocytes fromperipheralblood	blood
44	chr11:65558800-65559800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
45	chr11:65558800-65559800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
46	chr11:65558800-65559800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
47	chr11:65558800-65559800	Enhancers	Adipose Nuclei	Adipose
48	chr11:65558800-65559800	Enhancers	Monocytes-CD14+_RO01746	blood
49	chr11:65558800-65560200	Enhancers	Primary hematopoietic stem cells	blood

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