Variant report

Variant	rs9559699
Chromosome Location	chr13:110651942-110651943
allele	A/G
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	chr13:110651856..110654487-chr13:110670006..110672793,2	MCF-7	breast:
3	chr13:109568410..109572256-chr13:110650855..110652564,3	MCF-7	breast:
4	chr13:110436934..110441220-chr13:110649910..110655074,7	MCF-7	breast:
5	chr13:110651700..110653449-chr13:110664832..110667633,2	K562	blood:
6	chr13:110651354..110653633-chr13:110756277..110757904,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185950	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs11069818	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12429859	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3995573	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs55799126	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7982180	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.98[TSI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[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: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	chr13:110650800-110652600	Enhancers	Muscle Satellite Cultured Cells	--
9	chr13:110650800-110655400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr13:110651000-110652000	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr13:110651000-110652200	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr13:110651000-110654400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr13:110651000-110654800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr13:110651200-110652000	Enhancers	HSMM	muscle
15	chr13:110651400-110652000	Enhancers	NHDF-Ad	bronchial
16	chr13:110651400-110652000	Enhancers	NHLF	lung
17	chr13:110651400-110652200	Enhancers	Brain Hippocampus Middle	brain
18	chr13:110651400-110652400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr13:110651400-110652600	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr13:110651400-110653000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr13:110651400-110653400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr13:110651400-110653600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr13:110651400-110653600	Enhancers	Placenta	Placenta
24	chr13:110651400-110654000	Enhancers	Placenta Amnion	Placenta Amnion
25	chr13:110651400-110655000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr13:110651600-110652000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr13:110651600-110652000	Flanking Active TSS	A549	lung
28	chr13:110651600-110652400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr13:110651600-110652400	Enhancers	Fetal Muscle Leg	muscle
30	chr13:110651600-110653400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr13:110651600-110658000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr13:110651800-110652600	Enhancers	Primary hematopoietic stem cells	blood
33	chr13:110651800-110653000	Weak transcription	Osteobl	bone
34	chr13:110651800-110653200	Weak transcription	NH-A	brain
35	chr13:110651800-110654600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr13:110651800-110662800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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