Variant report

Variant	rs58993699
Chromosome Location	chr10:94822756-94822757
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:20)
CpG islands
(count:61)
Chromatin interactive
region (count:2)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:20 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	YY1	chr10:94822375-94822804	H1-hESC	embryonic stem cell:	n/a	n/a
2	BACH1	chr10:94822307-94822812	H1-hESC	embryonic stem cell:	n/a	n/a
3	CREB1	chr10:94822349-94822806	H1-hESC	embryonic stem cell:	n/a	n/a
4	MAX	chr10:94822317-94822965	H1-hESC	embryonic stem cell:	n/a	n/a
5	GABPA	chr10:94822304-94822801	H1-hESC	embryonic stem cell:	n/a	n/a
6	MAX	chr10:94822268-94822928	H1-hESC	embryonic stem cell:	n/a	n/a
7	RAD21	chr10:94822310-94822768	H1-hESC	embryonic stem cell:	n/a	n/a
8	E2F6	chr10:94822205-94823183	H1-hESC	embryonic stem cell:	n/a	n/a
9	CTCF	chr10:94822183-94822859	A549	lung:	n/a	n/a
10	YY1	chr10:94822239-94822794	H1-hESC	embryonic stem cell:	n/a	n/a
11	SUZ12	chr10:94819717-94824643	H1-hESC	embryonic stem cell:	n/a	n/a
12	SIN3AK20	chr10:94822358-94822805	PANC-1	pancreas:	n/a	n/a
13	E2F6	chr10:94822281-94823044	H1-hESC	embryonic stem cell:	n/a	n/a
14	ELF1	chr10:94822177-94822821	GM12878	blood:	n/a	n/a
15	RAD21	chr10:94822214-94822799	H1-hESC	embryonic stem cell:	n/a	n/a
16	MAX	chr10:94822256-94822800	A549	lung:	n/a	n/a
17	RAD21	chr10:94822294-94822810	A549	lung:	n/a	n/a
18	POLR2A	chr10:94822277-94822796	HL-60	blood:	n/a	n/a
19	TEAD4	chr10:94822290-94822826	H1-hESC	embryonic stem cell:	n/a	n/a
20	MAX	chr10:94822350-94822797	H1-hESC	embryonic stem cell:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr10:94822747-94822797	HAEpiC	amniotic membrane:	n/a
2	chr10:94822747-94822797	PrEC	prostate:	n/a
3	chr10:94822747-94822797	Caco-2	colon:	n/a
4	chr10:94822747-94822797	GM12891	blood:	n/a
5	chr10:94822747-94822797	GM06990	blood:	n/a
6	chr10:94822747-94822797	AG09309	skin:	n/a
7	chr10:94822747-94822797	IMR90	lung:	fetal
8	chr10:94822747-94822797	ovcar-3	ovarian:	n/a
9	chr10:94822747-94822797	NT2-D1	testis:	n/a
10	chr10:94822747-94822797	HCM	heart:	n/a
11	chr10:94822747-94822797	MCF-7	breast:	n/a
12	chr10:94822747-94822797	HRE	kidney:	n/a
13	chr10:94822747-94822797	PANC-1	pancreas:	n/a
14	chr10:94822747-94822797	ECC-1	luminal epithelium:	n/a
15	chr10:94822747-94822797	NB4	blood:	n/a
16	chr10:94822747-94822797	GM12892	blood:	n/a
17	chr10:94822747-94822797	MCF10A-Er-Src	breast:	n/a
18	chr10:94822747-94822797	HEEpiC	esophagus:	n/a
19	chr10:94822747-94822797	HMEC	breast:	n/a
20	chr10:94822747-94822797	HRCEpiC	kidney:	n/a
21	chr10:94822747-94822797	K562	blood:	n/a
22	chr10:94822747-94822797	AG04449	skin:	fetal
23	chr10:94822747-94822797	SK-N-MC	brain:	n/a
24	chr10:94822747-94822797	AoSMC	blood vessel:	n/a
25	chr10:94822747-94822797	T-47D	breast:	n/a
26	chr10:94822747-94822797	HIPEpiC	eye:	n/a
27	chr10:94822747-94822797	HCF	heart:	n/a
28	chr10:94822747-94822797	U87	brain:	n/a
29	chr10:94822747-94822797	BJ	skin:	n/a
30	chr10:94822747-94822797	NH-A	brain:	n/a
31	chr10:94822747-94822797	HCT-116	colon:	n/a
32	chr10:94822747-94822797	HRPEpiC	eye:	n/a
33	chr10:94822747-94822797	HNPCEpiC	eye:	n/a
34	chr10:94822747-94822797	SK-N-SH_RA	brain:	n/a
35	chr10:94822747-94822797	H1-hESC	embryonic stem cell:	embryo
36	chr10:94822747-94822797	AG09319	gingival:	n/a
37	chr10:94822747-94822797	GM12878	blood:	n/a
38	chr10:94822747-94822797	SKMC	muscle:	n/a
39	chr10:94822747-94822797	Hela-S3	cervix:	n/a
40	chr10:94822747-94822797	PFSK-1	brain:	n/a
41	chr10:94822747-94822797	RPTEC	kidney:	n/a
42	chr10:94822747-94822797	HUVEC	blood vessel:	n/a
43	chr10:94822747-94822797	HL-60	blood:	n/a
44	chr10:94822747-94822797	AG10803	skin:	n/a
45	chr10:94822747-94822797	SAEC	small airway:	n/a
46	chr10:94822747-94822797	HepG2	liver:	n/a
47	chr10:94822747-94822797	GM19239	blood:	n/a
48	chr10:94822747-94822797	NHDF-neo	bronchial:	n/a
49	chr10:94822747-94822797	A549	lung:	n/a
50	chr10:94822747-94822797	Hepatocyte	liver:	n/a

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:94822689..94825636-chr10:94825703..94828168,2	K562	blood:
2	chr10:94818208..94820843-chr10:94822190..94823877,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000226425	TF binding region
ENSG00000226425	CpG island
ENSG00000226425	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10748590	0.89[ASN][1000 genomes]
rs11187260	0.89[ASN][1000 genomes]
rs1222605	0.89[ASN][1000 genomes]
rs12263200	0.89[ASN][1000 genomes]
rs12358168	0.89[ASN][1000 genomes]
rs1238178	0.89[ASN][1000 genomes]
rs12416051	0.89[ASN][1000 genomes]
rs1339820	0.89[ASN][1000 genomes]
rs1750741	0.89[ASN][1000 genomes]
rs2478238	0.89[ASN][1000 genomes]
rs2486682	0.89[ASN][1000 genomes]
rs2486683	0.89[ASN][1000 genomes]
rs2486686	0.89[ASN][1000 genomes]
rs2486687	0.89[ASN][1000 genomes]
rs35630863	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4405247	0.89[ASN][1000 genomes]
rs4581378	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4917898	0.89[ASN][1000 genomes]
rs55856996	0.89[ASN][1000 genomes]
rs59539045	0.89[ASN][1000 genomes]
rs61863079	0.89[ASN][1000 genomes]
rs61863080	0.89[ASN][1000 genomes]
rs61863087	0.89[ASN][1000 genomes]
rs73317384	1.00[ASN][1000 genomes]
rs73319304	0.89[ASN][1000 genomes]
rs73319347	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73319398	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7895700	0.89[ASN][1000 genomes]
rs835256	0.89[ASN][1000 genomes]
rs835257	0.89[ASN][1000 genomes]
rs835258	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835260	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835261	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835262	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835263	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835265	0.89[ASN][1000 genomes]
rs835269	0.89[ASN][1000 genomes]
rs835270	0.89[ASN][1000 genomes]
rs835271	0.89[ASN][1000 genomes]
rs835274	0.89[ASN][1000 genomes]
rs835275	0.89[ASN][1000 genomes]
rs835277	0.89[ASN][1000 genomes]
rs835280	0.89[ASN][1000 genomes]
rs844341	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs860669	0.89[ASN][1000 genomes]
rs9419761	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9419763	0.89[ASN][1000 genomes]
rs9419765	0.89[ASN][1000 genomes]
rs9419766	0.89[ASN][1000 genomes]
rs9420603	0.89[ASN][1000 genomes]
rs9420607	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9420608	0.89[ASN][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	esv1802015	chr10:94811983-94839960	Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv895899	chr10:94818382-94836435	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94811800-94825000	Weak transcription	HepG2	liver
2	chr10:94818000-94822800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr10:94819600-94823600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
4	chr10:94819800-94823600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
5	chr10:94819800-94827800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr10:94820000-94823600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
7	chr10:94820400-94822800	Bivalent Enhancer	Placenta	Placenta
8	chr10:94820400-94823400	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
9	chr10:94820600-94822800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
10	chr10:94821000-94823000	Enhancers	Pancreas	Pancrea
11	chr10:94821200-94822800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr10:94821400-94822800	Bivalent/Poised TSS	Brain Substantia Nigra	brain
13	chr10:94821400-94823000	Bivalent Enhancer	Stomach Mucosa	stomach
14	chr10:94821400-94823200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr10:94821400-94823400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
16	chr10:94821600-94822800	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr10:94821600-94822800	Flanking Bivalent TSS/Enh	Duodenum Smooth Muscle	Duodenum
18	chr10:94821600-94822800	Bivalent/Poised TSS	Fetal Brain Female	brain
19	chr10:94821600-94822800	Bivalent Enhancer	Fetal Heart	heart
20	chr10:94821600-94822800	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
21	chr10:94821600-94822800	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
22	chr10:94821600-94822800	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
23	chr10:94821600-94823000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells short term culture	blood
24	chr10:94821600-94823000	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr10:94821600-94823200	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr10:94821600-94823200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr10:94821600-94823200	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr10:94821600-94823400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr10:94821600-94823600	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr10:94821800-94822800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
31	chr10:94821800-94822800	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
32	chr10:94821800-94822800	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood
33	chr10:94821800-94822800	Active TSS	Brain Anterior Caudate	brain
34	chr10:94821800-94822800	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
35	chr10:94821800-94822800	Flanking Bivalent TSS/Enh	NHEK	skin
36	chr10:94821800-94823000	Flanking Bivalent TSS/Enh	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr10:94821800-94823000	Flanking Bivalent TSS/Enh	Breast Myoepithelial Primary Cells	Breast
38	chr10:94821800-94823000	Flanking Bivalent TSS/Enh	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr10:94821800-94823000	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr10:94821800-94823000	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr10:94821800-94823000	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
42	chr10:94821800-94823000	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon
43	chr10:94821800-94823000	Flanking Bivalent TSS/Enh	HMEC	breast
44	chr10:94821800-94823200	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr10:94821800-94823200	Flanking Bivalent TSS/Enh	Colonic Mucosa	Colon
46	chr10:94821800-94823200	Bivalent Enhancer	Fetal Brain Male	brain
47	chr10:94821800-94823200	Enhancers	Lung	lung
48	chr10:94822000-94822800	Bivalent Enhancer	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr10:94822000-94822800	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr10:94822000-94822800	Flanking Bivalent TSS/Enh	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links