Variant report

Variant	rs11616866
Chromosome Location	chr13:110652684-110652685
allele	A/G
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr13:110651999..110652742-chr13:110760981..110761503,2	MCF-7	breast:
2	chr13:109571429..109572196-chr13:110652328..110653102,2	MCF-7	breast:
3	chr13:109571509..109572116-chr13:110652388..110652948,2	MCF-7	breast:
4	chr13:110624570..110627835-chr13:110649740..110653862,3	MCF-7	breast:
5	chr13:110228292..110228912-chr13:110652576..110653193,3	MCF-7	breast:
6	chr13:110651856..110654487-chr13:110670006..110672793,2	MCF-7	breast:
7	chr13:109571509..109572049-chr13:110652388..110653048,2	MCF-7	breast:
8	chr13:110436934..110441220-chr13:110649910..110655074,7	MCF-7	breast:
9	chr13:110651700..110653449-chr13:110664832..110667633,2	K562	blood:
10	chr13:110651354..110653633-chr13:110756277..110757904,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000185950	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10450818	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11069818	0.81[AFR][1000 genomes]
rs11616850	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11617996	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11618044	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11619058	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11619079	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11619827	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12427756	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3995573	0.82[AFR][1000 genomes]
rs4773106	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4773107	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7990049	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7990936	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv832719	chr13:110512259-110655883	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1049593	chr13:110615494-110725945	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv1842097	chr13:110644990-110680944	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:110649800-110654800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr13:110649800-110655000	Enhancers	Hela-S3	cervix
3	chr13:110650400-110655000	Enhancers	HMEC	breast
4	chr13:110650800-110655400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr13:110651000-110654400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr13:110651000-110654800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr13:110651400-110653000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr13:110651400-110653400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr13:110651400-110653600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr13:110651400-110653600	Enhancers	Placenta	Placenta
11	chr13:110651400-110654000	Enhancers	Placenta Amnion	Placenta Amnion
12	chr13:110651400-110655000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr13:110651600-110653400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr13:110651600-110658000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr13:110651800-110653000	Weak transcription	Osteobl	bone
16	chr13:110651800-110653200	Weak transcription	NH-A	brain
17	chr13:110651800-110654600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr13:110651800-110662800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr13:110652000-110653200	Weak transcription	NHDF-Ad	bronchial
20	chr13:110652000-110653200	Weak transcription	NHLF	lung
21	chr13:110652000-110653400	Weak transcription	HSMM	muscle
22	chr13:110652000-110654000	Enhancers	A549	lung
23	chr13:110652000-110654200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr13:110652200-110653000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr13:110652400-110652800	Active TSS	Brain Anterior Caudate	brain
26	chr13:110652400-110653000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr13:110652400-110654800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr13:110652600-110653000	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr13:110652600-110653000	Flanking Active TSS	NHEK	skin
30	chr13:110652600-110658000	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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