Variant report

Variant	rs9525011
Chromosome Location	chr13:96187508-96187509
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	EP300	chr13:96187317-96188073	A549	lung:	n/a	n/a
2	HA-E2F1	chr13:96187334-96188067	MCF-7	breast:	n/a	n/a
3	JUND	chr13:96187292-96188044	HCT-116	colon:	n/a	chr13:96187649-96187660
4	JUND	chr13:96187295-96187981	HCT-116	colon:	n/a	chr13:96187649-96187660
5	REST	chr13:96187419-96188014	A549	lung:	n/a	n/a
6	MAX	chr13:96187193-96188151	A549	lung:	n/a	n/a
7	FOSL2	chr13:96187360-96188047	MCF-7	breast:	n/a	chr13:96187724-96187735
8	GABPA	chr13:96187474-96187981	A549	lung:	n/a	n/a
9	STAT3	chr13:96187492-96187927	MCF10A-Er-Src	breast:	n/a	n/a
10	SP1	chr13:96187491-96187933	HepG2	liver:	n/a	n/a
11	JUND	chr13:96187449-96187899	HepG2	liver:	n/a	chr13:96187649-96187660
12	ZNF217	chr13:96187352-96188031	MCF-7	breast:	n/a	n/a
13	CBX3	chr13:96187375-96188033	HCT-116	colon:	n/a	n/a
14	CBX3	chr13:96187323-96188227	HCT-116	colon:	n/a	n/a
15	EP300	chr13:96187458-96187994	SK-N-SH	brain:	n/a	n/a
16	JUND	chr13:96187347-96187926	SK-N-SH	brain:	n/a	chr13:96187649-96187660
17	HDAC2	chr13:96187369-96187935	MCF-7	breast:	n/a	n/a
18	POLR2A	chr13:96187439-96187964	U87	brain:	n/a	n/a
19	STAT3	chr13:96187426-96187975	MCF10A-Er-Src	breast:	n/a	n/a
20	RXRA	chr13:96187340-96188061	SK-N-SH	brain:	n/a	n/a
21	TCF7L2	chr13:96187468-96187922	MCF-7	breast:	n/a	n/a
22	POLR2A	chr13:96187481-96187819	HCT-116	colon:	n/a	n/a
23	MAX	chr13:96187470-96188051	A549	lung:	n/a	n/a
24	NR3C1	chr13:96187499-96187925	A549	lung:	n/a	n/a
25	NR2F2	chr13:96187369-96188013	MCF-7	breast:	n/a	n/a
26	BATF	chr13:96187480-96187857	GM12878	blood:	n/a	chr13:96187647-96187658
27	SIN3AK20	chr13:96187256-96188118	MCF-7	breast:	n/a	n/a
28	POLR2A	chr13:96187405-96187838	HUVEC	blood vessel:	n/a	n/a
29	FOXA1	chr13:96187404-96187959	HepG2	liver:	n/a	n/a
30	NFIC	chr13:96187428-96187941	SK-N-SH	brain:	n/a	n/a
31	GATA3	chr13:96187263-96188061	SK-N-SH	brain:	n/a	n/a
32	FOSL1	chr13:96187242-96188092	HCT-116	colon:	n/a	chr13:96187649-96187660
33	SP1	chr13:96187263-96188015	HCT-116	colon:	n/a	n/a
34	FOSL2	chr13:96187358-96188033	MCF-7	breast:	n/a	chr13:96187724-96187735
35	JUND	chr13:96187504-96187857	HepG2	liver:	n/a	chr13:96187649-96187660
36	NFIC	chr13:96187401-96187914	HepG2	liver:	n/a	n/a
37	HDAC2	chr13:96187482-96187908	MCF-7	breast:	n/a	n/a
38	POLR2A	chr13:96187414-96187985	U87	brain:	n/a	n/a
39	POLR2A	chr13:96187390-96187859	PANC-1	pancreas:	n/a	n/a
40	TCF12	chr13:96187374-96188074	SK-N-SH	brain:	n/a	n/a
41	MYC	chr13:96187505-96187982	MCF10A-Er-Src	breast:	n/a	n/a
42	EP300	chr13:96187500-96187916	HepG2	liver:	n/a	n/a
43	FOS	chr13:96187458-96187947	MCF10A-Er-Src	breast:	n/a	chr13:96187649-96187660
44	JUN	chr13:96187414-96187913	HUVEC	blood vessel:	n/a	n/a
45	GATA3	chr13:96187095-96188072	MCF-7	breast:	n/a	n/a
46	EGR1	chr13:96187350-96188252	HCT-116	colon:	n/a	n/a
47	GATA3	chr13:96187413-96187815	MCF-7	breast:	n/a	n/a
48	JUND	chr13:96187403-96187876	A549	lung:	n/a	chr13:96187649-96187660
49	BCL3	chr13:96187374-96187984	A549	lung:	n/a	n/a
50	GATA3	chr13:96187296-96187985	SK-N-SH	brain:	n/a	n/a

Variant related genes	Relation type
CLDN10-AS1	TF binding region

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1000601	0.82[EUR][1000 genomes]
rs1952107	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4771920	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4771921	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4773919	0.83[EUR][1000 genomes]
rs59483123	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72651928	0.82[EUR][1000 genomes]
rs7995795	0.82[EUR][1000 genomes]
rs8001332	0.83[EUR][1000 genomes]
rs9516600	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9516601	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9516602	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9525010	0.99[ASN][1000 genomes]
rs9525016	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9525017	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9525018	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9525019	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9525020	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9525025	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9525026	0.82[EUR][1000 genomes]
rs9525028	0.83[EUR][1000 genomes]
rs9525029	0.83[EUR][1000 genomes]
rs9525030	0.82[EUR][1000 genomes]
rs9525032	0.82[EUR][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:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96182600-96187600	Weak transcription	HSMMtube	muscle
2	chr13:96183000-96188800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr13:96183000-96192800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr13:96185800-96189000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr13:96185800-96189000	Enhancers	HepG2	liver
6	chr13:96185800-96189000	Enhancers	HUVEC	blood vessel
7	chr13:96186000-96188400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr13:96186000-96189000	Enhancers	Osteobl	bone
9	chr13:96186200-96187600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr13:96186200-96187600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr13:96186200-96189400	Enhancers	Muscle Satellite Cultured Cells	--
12	chr13:96186400-96187600	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr13:96186400-96187600	Weak transcription	Stomach Mucosa	stomach
14	chr13:96186400-96188200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr13:96186400-96188800	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr13:96186400-96188800	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr13:96186400-96188800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr13:96186400-96188800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr13:96186400-96188800	Weak transcription	Fetal Kidney	kidney
20	chr13:96186400-96189400	Enhancers	NH-A	brain
21	chr13:96186400-96193000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr13:96186600-96189600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr13:96187000-96188200	Enhancers	Pancreatic Islets	Pancreatic Islet
24	chr13:96187000-96188200	Flanking Active TSS	A549	lung
25	chr13:96187000-96188400	Enhancers	NHEK	skin
26	chr13:96187000-96188800	Enhancers	HMEC	breast
27	chr13:96187000-96189000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr13:96187200-96187800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr13:96187200-96188200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr13:96187200-96188200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr13:96187200-96188200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr13:96187200-96188200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr13:96187200-96188200	Enhancers	Pancreas	Pancrea
34	chr13:96187200-96188200	Enhancers	NHDF-Ad	bronchial
35	chr13:96187200-96188400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr13:96187200-96188400	Enhancers	Hela-S3	cervix
37	chr13:96187400-96188000	Enhancers	Esophagus	oesophagus
38	chr13:96187400-96188000	Enhancers	Psoas Muscle	Psoas
39	chr13:96187400-96188400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr13:96187400-96188800	Weak transcription	Brain Anterior Caudate	brain
41	chr13:96187400-96189000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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