Variant report

Variant	rs61739968
Chromosome Location	chr10:50396424-50396425
allele	C/G
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	RCOR1	chr10:50396321-50396835	K562	blood:	n/a	n/a
2	USF1	chr10:50396330-50396701	HCT-116	colon:	n/a	chr10:50396473-50396484 chr10:50396438-50396449
3	ZNF143	chr10:50396225-50396701	GM12878	blood:	n/a	n/a
4	POLR2A	chr10:50396202-50396651	K562	blood:	n/a	n/a
5	TBP	chr10:50396218-50396920	GM12878	blood:	n/a	n/a
6	MAX	chr10:50396139-50396700	K562	blood:	n/a	chr10:50396439-50396449
7	POLR2A	chr10:50396284-50396796	ECC-1	luminal epithelium:	n/a	n/a
8	USF2	chr10:50396340-50396593	H1-hESC	embryonic stem cell:	n/a	n/a
9	SPI1	chr10:50396314-50396718	GM12891	blood:	n/a	n/a
10	CBX3	chr10:50396256-50396793	K562	blood:	n/a	n/a
11	CUX1	chr10:50396128-50396791	GM12878	blood:	n/a	n/a
12	HEY1	chr10:50396172-50396691	K562	blood:	n/a	n/a
13	ZNF384	chr10:50396120-50396663	GM12878	blood:	n/a	n/a
14	USF2	chr10:50396162-50396747	GM12878	blood:	n/a	n/a
15	POLR2A	chr10:50396262-50396737	ECC-1	luminal epithelium:	n/a	n/a
16	CHD2	chr10:50396045-50396788	GM12878	blood:	n/a	n/a
17	CTCF	chr10:50396340-50396490	GM12873	blood:	n/a	n/a
18	RFX5	chr10:50396382-50396792	GM12878	blood:	n/a	n/a
19	POLR2A	chr10:50396360-50396473	HUVEC	blood vessel:	n/a	n/a
20	HCFC1	chr10:50396321-50396753	K562	blood:	n/a	n/a
21	USF1	chr10:50396275-50396640	H1-hESC	embryonic stem cell:	n/a	chr10:50396473-50396484 chr10:50396438-50396449
22	POLR2A	chr10:50396044-50396899	U87	brain:	n/a	n/a
23	CHD1	chr10:50396081-50396777	GM12878	blood:	n/a	n/a
24	UBTF	chr10:50396283-50396692	K562	blood:	n/a	n/a
25	USF1	chr10:50396174-50396899	ECC-1	luminal epithelium:	n/a	chr10:50396473-50396484 chr10:50396438-50396449
26	E2F6	chr10:50396299-50396533	K562	blood:	n/a	n/a
27	WRNIP1	chr10:50396067-50396783	GM12878	blood:	n/a	n/a
28	BHLHE40	chr10:50396272-50396679	K562	blood:	n/a	n/a
29	TAF1	chr10:50396338-50396690	GM12891	blood:	n/a	n/a
30	YY1	chr10:50396281-50396546	K562	blood:	n/a	n/a
31	USF1	chr10:50396219-50396766	K562	blood:	n/a	chr10:50396473-50396484 chr10:50396438-50396449
32	POLR2A	chr10:50396191-50396852	GM18505	blood:	n/a	n/a
33	NRF1	chr10:50396397-50396679	GM12878	blood:	n/a	n/a
34	POLR2A	chr10:50396194-50396831	GM12878	blood:	n/a	n/a
35	USF1	chr10:50396165-50396663	K562	blood:	n/a	chr10:50396473-50396484 chr10:50396438-50396449
36	RCOR1	chr10:50396274-50396704	GM12878	blood:	n/a	n/a
37	POLR2A	chr10:50396081-50396854	GM18526	blood:	n/a	n/a
38	POLR2A	chr10:50396114-50397195	GM19193	blood:	n/a	n/a
39	SPI1	chr10:50396198-50396825	HL-60	blood:	n/a	n/a
40	CTCF	chr10:50396400-50396550	GM12872	blood:	n/a	n/a
41	POLR2A	chr10:50396163-50396812	GM12891	blood:	n/a	n/a
42	JUND	chr10:50396099-50396667	K562	blood:	n/a	n/a
43	MAX	chr10:50396047-50396718	NB4	blood:	n/a	chr10:50396439-50396449
44	MAX	chr10:50396285-50396895	ECC-1	luminal epithelium:	n/a	chr10:50396439-50396449
45	UBTF	chr10:50396248-50396621	K562	blood:	n/a	n/a
46	MAX	chr10:50396320-50396651	HUVEC	blood vessel:	n/a	chr10:50396439-50396449
47	POLR2A	chr10:50396263-50396749	GM12892	blood:	n/a	n/a
48	MYC	chr10:50396025-50396827	K562	blood:	n/a	chr10:50396439-50396449
49	EP300	chr10:50396340-50396651	GM12878	blood:	n/a	n/a
50	EP300	chr10:50396281-50396914	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
C10orf128	TF binding region

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10159700	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10159817	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10159822	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101007	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101010	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11101018	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101019	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101046	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101047	1.00[AMR][1000 genomes]
rs11101048	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101050	1.00[AMR][1000 genomes]
rs11101052	1.00[AMR][1000 genomes]
rs11101053	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101055	1.00[AMR][1000 genomes]
rs11101056	1.00[AMR][1000 genomes]
rs11101059	1.00[AMR][1000 genomes]
rs12243236	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12244349	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12249572	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12251532	1.00[AMR][1000 genomes]
rs12251535	1.00[AMR][1000 genomes]
rs12251541	1.00[AMR][1000 genomes]
rs12253136	1.00[AMR][1000 genomes]
rs12253212	1.00[AMR][1000 genomes]
rs12253681	1.00[AMR][1000 genomes]
rs12253756	1.00[AMR][1000 genomes]
rs12258000	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12258809	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12260357	1.00[AMR][1000 genomes]
rs12262517	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs17009534	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7358036	0.80[AFR][1000 genomes]
rs7358236	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895375	chr10:50306386-51028871	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv534410	chr10:50317458-50826916	Weak transcription Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50391600-50399400	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr10:50394200-50396800	Flanking Active TSS	K562	blood
3	chr10:50394400-50397000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
4	chr10:50394600-50396800	Active TSS	Primary T helper cells PMA-I stimulated	--
5	chr10:50394600-50398600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
6	chr10:50394800-50396600	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
7	chr10:50394800-50396600	Active TSS	Duodenum Mucosa	Duodenum
8	chr10:50394800-50396800	Flanking Active TSS	Adipose Nuclei	Adipose
9	chr10:50394800-50396800	Active TSS	Colonic Mucosa	Colon
10	chr10:50394800-50396800	Active TSS	Colon Smooth Muscle	Colon
11	chr10:50394800-50399000	Enhancers	Primary hematopoietic stem cells	blood
12	chr10:50395000-50397400	Active TSS	Rectal Smooth Muscle	rectum
13	chr10:50395200-50396600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr10:50395200-50396600	Enhancers	Fetal Stomach	stomach
15	chr10:50395200-50396800	Flanking Active TSS	Primary B cells from peripheral blood	blood
16	chr10:50395200-50397600	Enhancers	Fetal Lung	lung
17	chr10:50395200-50398600	Enhancers	Spleen	Spleen
18	chr10:50395400-50397000	Flanking Active TSS	Primary B cells from cord blood	blood
19	chr10:50395400-50397000	Enhancers	HUVEC	blood vessel
20	chr10:50395400-50398400	Weak transcription	Esophagus	oesophagus
21	chr10:50395600-50396600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
22	chr10:50395600-50397600	Weak transcription	Pancreas	Pancrea
23	chr10:50395800-50396600	Active TSS	Brain Angular Gyrus	brain
24	chr10:50396000-50396600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr10:50396000-50396600	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
26	chr10:50396000-50396800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr10:50396000-50396800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
28	chr10:50396000-50396800	Active TSS	Primary T regulatory cells fromperipheralblood	blood
29	chr10:50396000-50396800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr10:50396000-50396800	Flanking Active TSS	Right Atrium	heart
31	chr10:50396000-50396800	Flanking Active TSS	GM12878-XiMat	blood
32	chr10:50396000-50397000	Flanking Active TSS	Brain Hippocampus Middle	brain
33	chr10:50396000-50397000	Flanking Active TSS	Dnd41	blood
34	chr10:50396200-50396600	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
35	chr10:50396200-50396600	Active TSS	Primary T helper cells fromperipheralblood	blood
36	chr10:50396200-50396600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr10:50396200-50396600	Active TSS	Brain Substantia Nigra	brain
38	chr10:50396200-50396600	Enhancers	Fetal Heart	heart
39	chr10:50396200-50396600	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
40	chr10:50396200-50396600	Flanking Active TSS	Lung	lung
41	chr10:50396200-50396800	Flanking Active TSS	Left Ventricle	heart
42	chr10:50396200-50396800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
43	chr10:50396200-50396800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
44	chr10:50396200-50397200	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
45	chr10:50396200-50397800	Enhancers	Fetal Thymus	thymus
46	chr10:50396200-50398000	Enhancers	Primary T killer memory cells from peripheral blood	blood
47	chr10:50396200-50398600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
48	chr10:50396400-50396600	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
49	chr10:50396400-50396600	Active TSS	Brain Cingulate Gyrus	brain
50	chr10:50396400-50396600	Active TSS	Brain Inferior Temporal Lobe	brain

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