Variant report

Variant	rs9559776
Chromosome Location	chr13:111005332-111005333
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:111000060..111002459-chr13:111005280..111006914,2	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10161671	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10161783	0.82[CHB][hapmap]
rs10220229	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs2094700	0.83[CHB][hapmap]
rs4773170	0.83[CHB][hapmap]
rs4773171	0.81[CHB][hapmap]
rs61964326	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7318424	0.81[CHB][hapmap]
rs9301447	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9301448	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9521721	0.82[CHB][hapmap]
rs9555692	0.80[CHB][hapmap]
rs9555694	0.83[CHB][hapmap]
rs9559775	0.88[CHB][hapmap];0.91[ASN][1000 genomes]
rs9559781	0.83[CHB][hapmap]

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	nsv1038914	chr13:110860219-111190104	Weak transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv1046423	chr13:110936104-111286607	Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv1049454	chr13:110950768-111006547	Strong transcription Flanking Active TSS Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:110972600-111007200	Weak transcription	Gastric	stomach
2	chr13:110993800-111007200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr13:110994000-111019600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr13:110994400-111007200	Weak transcription	Fetal Kidney	kidney
5	chr13:110995200-111007000	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr13:110995600-111005800	Weak transcription	Fetal Lung	lung
7	chr13:110996000-111009800	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr13:111000000-111009400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr13:111000000-111009800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr13:111000200-111005800	Weak transcription	Fetal Intestine Small	intestine
11	chr13:111000400-111007200	Weak transcription	Pancreas	Pancrea
12	chr13:111000600-111008600	Weak transcription	Esophagus	oesophagus
13	chr13:111000600-111013800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr13:111000800-111019800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr13:111001000-111009800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr13:111001200-111009800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr13:111001400-111006200	Enhancers	Left Ventricle	heart
18	chr13:111001600-111008000	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr13:111001600-111012200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr13:111001800-111009800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr13:111001800-111009800	Weak transcription	NHLF	lung
22	chr13:111002000-111010400	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr13:111002000-111015200	Weak transcription	Brain Substantia Nigra	brain
24	chr13:111002200-111008800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr13:111002400-111005800	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr13:111002400-111008600	Enhancers	Rectal Smooth Muscle	rectum
27	chr13:111002400-111009800	Weak transcription	HSMMtube	muscle
28	chr13:111002400-111026000	Weak transcription	Psoas Muscle	Psoas
29	chr13:111003200-111005400	Weak transcription	Osteobl	bone
30	chr13:111003200-111006000	Weak transcription	Fetal Brain Male	brain
31	chr13:111003200-111009600	Enhancers	Fetal Heart	heart
32	chr13:111003200-111009800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr13:111003200-111009800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr13:111003400-111009800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr13:111003600-111005800	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr13:111003800-111005800	Genic enhancers	Fetal Muscle Trunk	muscle
37	chr13:111003800-111008000	Enhancers	Lung	lung
38	chr13:111004000-111005400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr13:111004000-111005800	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
40	chr13:111004000-111009600	Enhancers	Colon Smooth Muscle	Colon
41	chr13:111004200-111006800	Strong transcription	HSMM	muscle
42	chr13:111004200-111007400	Enhancers	Adipose Nuclei	Adipose
43	chr13:111004200-111007600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr13:111004400-111006200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr13:111004400-111006200	Enhancers	Placenta	Placenta
46	chr13:111004400-111006200	Enhancers	Right Ventricle	heart
47	chr13:111004400-111007200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr13:111004400-111007800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr13:111004400-111009000	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr13:111004400-111009800	Weak transcription	HUVEC	blood vessel

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