Variant report

Variant	rs9559698
Chromosome Location	chr13:110651738-110651739
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:110624570..110627835-chr13:110649740..110653862,3	MCF-7	breast:
2	chr13:109568410..109572256-chr13:110650855..110652564,3	MCF-7	breast:
3	chr13:110436934..110441220-chr13:110649910..110655074,7	MCF-7	breast:
4	chr13:110651700..110653449-chr13:110664832..110667633,2	K562	blood:
5	chr13:110651354..110653633-chr13:110756277..110757904,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185950	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1333982	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1333987	0.89[EUR][1000 genomes]
rs56296105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58503998	0.84[EUR][1000 genomes]
rs72652006	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72652007	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72652014	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72670114	0.88[EUR][1000 genomes]
rs72670117	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72670118	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72670125	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72670128	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72670134	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72670135	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72670137	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7330996	0.88[EUR][1000 genomes]
rs7332564	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7999512	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8000641	0.88[EUR][1000 genomes]
rs915017	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs915018	0.96[EUR][1000 genomes]
rs9555650	0.83[EUR][1000 genomes]
rs9555651	0.83[EUR][1000 genomes]
rs9555653	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9555654	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9555658	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9555659	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9555660	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9559676	0.88[EUR][1000 genomes]
rs9559677	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9559679	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9559681	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9559688	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9559691	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9559693	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9559694	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9559695	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9559696	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9559697	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9559700	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9559701	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9559705	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9559706	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9559707	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9559708	0.81[ASN][1000 genomes]
rs9588040	0.92[EUR][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:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:110649200-110652600	Enhancers	Liver	Liver
2	chr13:110649800-110652600	Enhancers	Adipose Nuclei	Adipose
3	chr13:110649800-110654800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr13:110649800-110655000	Enhancers	Hela-S3	cervix
5	chr13:110650400-110652200	Enhancers	Fetal Kidney	kidney
6	chr13:110650400-110655000	Enhancers	HMEC	breast
7	chr13:110650600-110652600	Enhancers	NHEK	skin
8	chr13:110650800-110651800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr13:110650800-110651800	Enhancers	NH-A	brain
10	chr13:110650800-110652600	Enhancers	Muscle Satellite Cultured Cells	--
11	chr13:110650800-110655400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr13:110651000-110652000	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr13:110651000-110652200	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr13:110651000-110654400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr13:110651000-110654800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr13:110651200-110652000	Enhancers	HSMM	muscle
17	chr13:110651400-110651800	Enhancers	Fetal Brain Male	brain
18	chr13:110651400-110651800	Enhancers	Osteobl	bone
19	chr13:110651400-110652000	Enhancers	NHDF-Ad	bronchial
20	chr13:110651400-110652000	Enhancers	NHLF	lung
21	chr13:110651400-110652200	Enhancers	Brain Hippocampus Middle	brain
22	chr13:110651400-110652400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr13:110651400-110652600	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr13:110651400-110653000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr13:110651400-110653400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr13:110651400-110653600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr13:110651400-110653600	Enhancers	Placenta	Placenta
28	chr13:110651400-110654000	Enhancers	Placenta Amnion	Placenta Amnion
29	chr13:110651400-110655000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr13:110651600-110651800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr13:110651600-110652000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr13:110651600-110652000	Flanking Active TSS	A549	lung
33	chr13:110651600-110652400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr13:110651600-110652400	Enhancers	Fetal Muscle Leg	muscle
35	chr13:110651600-110653400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr13:110651600-110658000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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