Variant report

Variant	rs9556488
Chromosome Location	chr13:96187081-96187082
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr13:96187018-96187981	MCF10A-Er-Src	breast:	n/a	chr13:96187649-96187660
2	FOS	chr13:96186838-96187994	MCF10A-Er-Src	breast:	n/a	chr13:96187649-96187660
3	GATA2	chr13:96185881-96188177	HUVEC	blood vessel:	n/a	n/a
4	FOS	chr13:96186557-96188010	MCF10A-Er-Src	breast:	n/a	chr13:96187649-96187660
5	TCF12	chr13:96187079-96188211	A549	lung:	n/a	n/a

Variant related genes	Relation type
CLDN10-AS1	TF binding region

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12583339	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12585702	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12870793	0.92[JPT][hapmap]
rs17235306	0.92[JPT][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35195129	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9561897	0.92[JPT][hapmap];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900933	chr13:96138087-96215289	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96182600-96187600	Weak transcription	HSMMtube	muscle
2	chr13:96183000-96187200	Weak transcription	Hela-S3	cervix
3	chr13:96183000-96187400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr13:96183000-96188800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr13:96183000-96192800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr13:96183600-96187200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr13:96184200-96187200	Weak transcription	NHDF-Ad	bronchial
8	chr13:96185800-96189000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr13:96185800-96189000	Enhancers	HepG2	liver
10	chr13:96185800-96189000	Enhancers	HUVEC	blood vessel
11	chr13:96186000-96188400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr13:96186000-96189000	Enhancers	Osteobl	bone
13	chr13:96186200-96187200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr13:96186200-96187200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr13:96186200-96187200	Weak transcription	Pancreas	Pancrea
16	chr13:96186200-96187400	Weak transcription	Esophagus	oesophagus
17	chr13:96186200-96187600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr13:96186200-96187600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr13:96186200-96189400	Enhancers	Muscle Satellite Cultured Cells	--
20	chr13:96186400-96187200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr13:96186400-96187600	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr13:96186400-96187600	Weak transcription	Stomach Mucosa	stomach
23	chr13:96186400-96188200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr13:96186400-96188800	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr13:96186400-96188800	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr13:96186400-96188800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr13:96186400-96188800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr13:96186400-96188800	Weak transcription	Fetal Kidney	kidney
29	chr13:96186400-96189400	Enhancers	NH-A	brain
30	chr13:96186400-96193000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr13:96186600-96189600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr13:96187000-96187200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr13:96187000-96188200	Enhancers	Pancreatic Islets	Pancreatic Islet
34	chr13:96187000-96188200	Flanking Active TSS	A549	lung
35	chr13:96187000-96188400	Enhancers	NHEK	skin
36	chr13:96187000-96188800	Enhancers	HMEC	breast
37	chr13:96187000-96189000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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