Variant report

Variant	rs36060625
Chromosome Location	chr3:23848835-23848836
allele	A/C/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	MXI1	chr3:23848025-23849455	IMR90	lung:	n/a	n/a
2	FOXA2	chr3:23848400-23848836	HepG2	liver:	n/a	n/a
3	POLR2A	chr3:23848024-23848965	HL-60	blood:	n/a	n/a
4	ZBTB7A	chr3:23846976-23848886	ECC-1	luminal epithelium:	n/a	chr3:23847207-23847216
5	POLR2A	chr3:23848153-23848978	H1-hESC	embryonic stem cell:	n/a	n/a
6	TAF1	chr3:23848801-23849001	SK-N-SH	brain:	n/a	n/a
7	MAX	chr3:23848416-23848854	H1-hESC	embryonic stem cell:	n/a	chr3:23848624-23848633 chr3:23848482-23848492
8	ZBTB7A	chr3:23846979-23848956	K562	blood:	n/a	chr3:23847207-23847216
9	WRNIP1	chr3:23848821-23849169	GM12878	blood:	n/a	n/a
10	JUND	chr3:23848208-23848885	K562	blood:	n/a	n/a
11	CHD1	chr3:23848444-23849462	GM12878	blood:	n/a	n/a
12	MYC	chr3:23847981-23849076	K562	blood:	n/a	chr3:23848624-23848633 chr3:23848482-23848492
13	FOXA1	chr3:23848421-23848871	HepG2	liver:	n/a	n/a
14	FOXA1	chr3:23848377-23848893	HepG2	liver:	n/a	n/a
15	FOXA1	chr3:23848258-23848934	HepG2	liver:	n/a	n/a
16	FOXA2	chr3:23848256-23848977	A549	lung:	n/a	n/a
17	RUNX3	chr3:23848410-23849248	GM12878	blood:	n/a	n/a
18	POLR2A	chr3:23848363-23849052	GM12878	blood:	n/a	n/a
19	MAX	chr3:23848482-23848967	K562	blood:	n/a	chr3:23848624-23848633 chr3:23848482-23848492
20	FOXA1	chr3:23848424-23848844	T-47D	breast:	n/a	n/a
21	ZNF263	chr3:23848527-23849103	HEK293-T-REx	kidney:	n/a	n/a
22	POLR2A	chr3:23847113-23849021	H1-hESC	embryonic stem cell:	n/a	n/a
23	MYC	chr3:23848136-23849051	NB4	blood:	n/a	chr3:23848624-23848633 chr3:23848482-23848492
24	MAX	chr3:23848151-23848944	HepG2	liver:	n/a	chr3:23848624-23848633 chr3:23848482-23848492
25	TAF1	chr3:23848737-23848981	H1-hESC	embryonic stem cell:	n/a	n/a
26	TBP	chr3:23848507-23848948	H1-hESC	embryonic stem cell:	n/a	n/a
27	FOXA2	chr3:23848205-23848969	A549	lung:	n/a	n/a
28	POLR2A	chr3:23848830-23848864	GM12878	blood:	n/a	n/a
29	EBF1	chr3:23848433-23849163	GM12878	blood:	n/a	n/a
30	POLR2A	chr3:23847230-23848839	GM12892	blood:	n/a	n/a
31	CCNT2	chr3:23847378-23848866	K562	blood:	n/a	chr3:23847925-23847934
32	ZMIZ1	chr3:23848779-23848908	K562	blood:	n/a	n/a
33	SPI1	chr3:23848539-23848839	HL-60	blood:	n/a	n/a
34	POLR2A	chr3:23847284-23848865	GM19193	blood:	n/a	n/a
35	MTA3	chr3:23848250-23849233	GM12878	blood:	n/a	n/a
36	POLR2A	chr3:23848498-23849047	GM12878	blood:	n/a	n/a
37	SIN3A	chr3:23848199-23849034	H1-hESC	embryonic stem cell:	n/a	n/a
38	TAF1	chr3:23848428-23848939	K562	blood:	n/a	n/a
39	SPI1	chr3:23848427-23849121	HL-60	blood:	n/a	n/a
40	MAX	chr3:23848292-23848976	A549	lung:	n/a	chr3:23848624-23848633 chr3:23848482-23848492
41	ZBTB7A	chr3:23846913-23848985	ECC-1	luminal epithelium:	n/a	chr3:23847207-23847216
42	MAX	chr3:23847927-23849019	K562	blood:	n/a	chr3:23848624-23848633 chr3:23848482-23848492
43	POLR2A	chr3:23847906-23849037	K562	blood:	n/a	n/a
44	POLR2A	chr3:23847036-23848947	K562	blood:	n/a	n/a
45	CTCF	chr3:23848620-23848910	HUVEC	blood vessel:	n/a	n/a
46	RAD21	chr3:23848767-23849027	SK-N-SH_RA	brain:	n/a	n/a
47	TBP	chr3:23848689-23848990	GM12878	blood:	n/a	n/a
48	NFYB	chr3:23848647-23848995	GM12878	blood:	n/a	n/a
49	MAX	chr3:23848079-23848878	H1-hESC	embryonic stem cell:	n/a	chr3:23848624-23848633 chr3:23848482-23848492
50	RUNX3	chr3:23848548-23849317	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:23846193..23848940-chr3:24535065..24537255,2	K562	blood:
2	chr3:23846380..23850116-chr3:23956700..23960461,6	MCF-7	breast:

Variant related genes	Relation type
UBE2E1	TF binding region
UBE2E1-AS1	TF binding region
ENSG00000174748	Chromatin interaction
ENSG00000151090	Chromatin interaction
ENSG00000197885	Chromatin interaction
ENSG00000228791	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1037635	0.85[EUR][1000 genomes]
rs34953164	0.87[EUR][1000 genomes]
rs4535169	0.85[EUR][1000 genomes]
rs55932805	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6767005	0.81[EUR][1000 genomes]
rs6776201	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6776568	0.91[EUR][1000 genomes]
rs6791805	0.85[EUR][1000 genomes]
rs9812419	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834637	chr3:23703928-23886144	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	esv3378886	chr3:23846373-23849821	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23846800-23849000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:23846800-23849000	Active TSS	HUES64 Cell Line	embryonic stem cell
3	chr3:23846800-23849000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:23846800-23849000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr3:23846800-23849000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr3:23846800-23849000	Active TSS	Muscle Satellite Cultured Cells	--
7	chr3:23846800-23849000	Active TSS	Brain Hippocampus Middle	brain
8	chr3:23846800-23849000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
9	chr3:23846800-23849000	Active TSS	Colonic Mucosa	Colon
10	chr3:23846800-23849000	Active TSS	Stomach Smooth Muscle	stomach
11	chr3:23846800-23849000	Active TSS	NHLF	lung
12	chr3:23846800-23849200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr3:23846800-23849200	Active TSS	H9 Cell Line	embryonic stem cell
14	chr3:23846800-23849200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr3:23846800-23849200	Active TSS	Breast Myoepithelial Primary Cells	Breast
16	chr3:23846800-23849200	Active TSS	Aorta	Aorta
17	chr3:23846800-23849200	Active TSS	Brain Angular Gyrus	brain
18	chr3:23846800-23849200	Active TSS	Brain Cingulate Gyrus	brain
19	chr3:23846800-23849200	Active TSS	Colon Smooth Muscle	Colon
20	chr3:23846800-23849200	Active TSS	Fetal Muscle Trunk	muscle
21	chr3:23846800-23849200	Active TSS	Left Ventricle	heart
22	chr3:23846800-23849200	Active TSS	Psoas Muscle	Psoas
23	chr3:23846800-23849200	Active TSS	Right Ventricle	heart
24	chr3:23846800-23849400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr3:23846800-23849400	Active TSS	Brain Inferior Temporal Lobe	brain
26	chr3:23846800-23849400	Active TSS	Pancreatic Islets	Pancreatic Islet
27	chr3:23847000-23849000	Active TSS	ES-I3 Cell Line	embryonic stem cell
28	chr3:23847000-23849000	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr3:23847000-23849000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr3:23847000-23849000	Active TSS	HUES6 Cell Line	embryonic stem cell
31	chr3:23847000-23849000	Active TSS	iPS-20b Cell Line	embryonic stem cell
32	chr3:23847000-23849000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr3:23847000-23849000	Active TSS	Duodenum Smooth Muscle	Duodenum
34	chr3:23847000-23849000	Active TSS	Esophagus	oesophagus
35	chr3:23847000-23849000	Active TSS	Pancreas	Pancrea
36	chr3:23847000-23849000	Active TSS	Rectal Smooth Muscle	rectum
37	chr3:23847000-23849000	Active TSS	Skeletal Muscle Female	skeletal muscle
38	chr3:23847000-23849000	Active TSS	A549	lung
39	chr3:23847000-23849000	Active TSS	HepG2	liver
40	chr3:23847000-23849000	Active TSS	NHEK	skin
41	chr3:23847000-23849200	Active TSS	iPS-15b Cell Line	embryonic stem cell
42	chr3:23847000-23849200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr3:23847000-23849200	Active TSS	Primary mononuclear cells fromperipheralblood	Blood
44	chr3:23847000-23849200	Active TSS	Brain Substantia Nigra	brain
45	chr3:23847000-23849200	Active TSS	Ovary	ovary
46	chr3:23847000-23849400	Active TSS	H1 Cell Line	embryonic stem cell
47	chr3:23847000-23849400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr3:23847000-23849400	Active TSS	Fetal Kidney	kidney
49	chr3:23847000-23849400	Active TSS	NHDF-Ad	bronchial
50	chr3:23847000-23849600	Active TSS	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links