Variant report

Variant	rs3778028
Chromosome Location	chr6:36349666-36349667
allele	G/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	MEF2A	chr6:36349660-36350311	GM12878	blood:	n/a	n/a
2	MEF2A	chr6:36349499-36350275	GM12878	blood:	n/a	n/a
3	CHD2	chr6:36349455-36350202	GM12878	blood:	n/a	n/a
4	POLR2A	chr6:36349253-36350004	GM12878	blood:	n/a	n/a
5	ATF2	chr6:36349447-36350227	GM12878	blood:	n/a	n/a
6	ZNF263	chr6:36349436-36349963	HEK293-T-REx	kidney:	n/a	n/a
7	CEBPB	chr6:36349430-36350200	GM12878	blood:	n/a	n/a
8	MXI1	chr6:36349482-36350107	GM12878	blood:	n/a	n/a
9	ATF2	chr6:36349492-36350307	GM12878	blood:	n/a	n/a
10	MTA3	chr6:36349380-36350111	GM12878	blood:	n/a	n/a
11	EP300	chr6:36349630-36350322	GM12878	blood:	n/a	n/a
12	NFIC	chr6:36349379-36350571	GM12878	blood:	n/a	n/a
13	STAT5A	chr6:36349449-36350123	GM12878	blood:	n/a	chr6:36349714-36349728
14	WRNIP1	chr6:36349439-36349854	GM12878	blood:	n/a	n/a
15	RUNX3	chr6:36349222-36350336	GM12878	blood:	n/a	n/a
16	RELA	chr6:36349513-36350032	GM12891	blood:	n/a	chr6:36349722-36349731 chr6:36349722-36349731
17	MTA3	chr6:36349272-36350658	GM12878	blood:	n/a	n/a
18	MEF2C	chr6:36349617-36350328	GM12878	blood:	n/a	chr6:36349987-36350002
19	RCOR1	chr6:36349519-36349955	GM12878	blood:	n/a	n/a
20	IKZF1	chr6:36349586-36350112	GM12878	blood:	n/a	n/a
21	FOXM1	chr6:36349422-36350370	GM12878	blood:	n/a	n/a
22	TBL1XR1	chr6:36349301-36350344	GM12878	blood:	n/a	n/a
23	EP300	chr6:36349640-36350258	GM12878	blood:	n/a	n/a
24	RUNX3	chr6:36349359-36350297	GM12878	blood:	n/a	n/a
25	BCLAF1	chr6:36349655-36350090	GM12878	blood:	n/a	chr6:36349722-36349731

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:36323097..36324990-chr6:36349232..36352025,2	MCF-7	breast:
2	chr6:36348504..36350017-chr6:36410247..36411932,2	K562	blood:

Variant related genes	Relation type
ENSG00000224666	TF binding region
ENSG00000112078	Chromatin interaction
ENSG00000179165	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs16888788	0.92[CHB][hapmap]
rs1744653	0.92[CHB][hapmap]
rs1885206	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2234065	0.87[EUR][1000 genomes]
rs2239541	0.82[AMR][1000 genomes]
rs2267930	0.92[CHB][hapmap];0.84[AMR][1000 genomes]
rs2273882	0.92[CHB][hapmap];0.84[AMR][1000 genomes]
rs4236051	0.92[CHB][hapmap];0.84[AMR][1000 genomes]
rs4711451	0.87[AMR][1000 genomes]
rs4713975	0.92[CHB][hapmap]
rs4713976	0.87[AMR][1000 genomes]
rs4713977	0.84[AMR][1000 genomes]
rs7741260	0.92[CHB][hapmap]
rs9470264	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[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	nsv428481	chr6:36219000-36365746	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36326800-36354000	Weak transcription	Small Intestine	intestine
2	chr6:36327000-36354000	Weak transcription	Right Atrium	heart
3	chr6:36328400-36351200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr6:36328400-36353400	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:36328800-36353600	Weak transcription	Brain Hippocampus Middle	brain
6	chr6:36333200-36353800	Weak transcription	Pancreas	Pancrea
7	chr6:36333800-36353600	Weak transcription	Stomach Mucosa	stomach
8	chr6:36334600-36351000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:36339200-36354200	Weak transcription	Esophagus	oesophagus
10	chr6:36339800-36353600	Weak transcription	Lung	lung
11	chr6:36341600-36350800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:36341800-36350800	Weak transcription	Spleen	Spleen
13	chr6:36344200-36354000	Weak transcription	Duodenum Mucosa	Duodenum
14	chr6:36345000-36351000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr6:36345400-36351800	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr6:36345600-36350400	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr6:36346000-36350200	Weak transcription	Aorta	Aorta
18	chr6:36346800-36351000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr6:36347200-36351000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr6:36349000-36350600	Weak transcription	Fetal Intestine Small	intestine
21	chr6:36349000-36350600	Flanking Active TSS	GM12878-XiMat	blood
22	chr6:36349000-36351600	Weak transcription	NHEK	skin
23	chr6:36349400-36350000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr6:36349400-36350800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr6:36349400-36350800	Enhancers	Primary B cells from peripheral blood	blood
26	chr6:36349600-36350400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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