Variant report

Variant	rs1256433
Chromosome Location	chr15:83525581-83525582
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	NR2F2	chr15:83525247-83525790	HepG2	liver:	n/a	n/a
2	JUND	chr15:83525188-83525690	HepG2	liver:	n/a	n/a
3	BHLHE40	chr15:83525154-83525724	HepG2	liver:	n/a	n/a
4	FOXA1	chr15:83525131-83525615	HepG2	liver:	n/a	n/a
5	EP300	chr15:83525134-83525743	HepG2	liver:	n/a	n/a
6	TCF7L2	chr15:83524985-83525808	HepG2	liver:	n/a	chr15:83525443-83525459 chr15:83525447-83525456 chr15:83525447-83525454
7	HNF4G	chr15:83525200-83525588	HepG2	liver:	n/a	chr15:83525474-83525482
8	SMC3	chr15:83525325-83525690	HepG2	liver:	n/a	n/a
9	HDAC2	chr15:83525207-83525581	HepG2	liver:	n/a	n/a
10	JUND	chr15:83525187-83525606	HepG2	liver:	n/a	n/a
11	USF2	chr15:83525320-83525697	HepG2	liver:	n/a	n/a
12	FOXA1	chr15:83525195-83525641	HepG2	liver:	n/a	n/a
13	RFX5	chr15:83525341-83525715	HepG2	liver:	n/a	n/a
14	FOSL2	chr15:83525179-83525700	HepG2	liver:	n/a	chr15:83525411-83525422
15	HNF4A	chr15:83525154-83525619	HepG2	liver:	n/a	chr15:83525474-83525482 chr15:83525465-83525480
16	NFIC	chr15:83525202-83525662	HepG2	liver:	n/a	n/a
17	USF1	chr15:83525396-83525689	H1-hESC	embryonic stem cell:	n/a	chr15:83525501-83525512
18	MAFF	chr15:83525338-83525586	HepG2	liver:	n/a	n/a
19	USF1	chr15:83525364-83525638	K562	blood:	n/a	chr15:83525501-83525512
20	MYBL2	chr15:83525011-83525638	HepG2	liver:	n/a	n/a
21	FOSL2	chr15:83525119-83525676	HepG2	liver:	n/a	chr15:83525411-83525422
22	ARID3A	chr15:83525164-83525810	HepG2	liver:	n/a	n/a
23	HNF4A	chr15:83525202-83525634	HepG2	liver:	n/a	chr15:83525474-83525482 chr15:83525465-83525480
24	FOXA1	chr15:83525180-83525695	HepG2	liver:	n/a	n/a
25	USF1	chr15:83525369-83525590	HepG2	liver:	n/a	chr15:83525501-83525512
26	MAZ	chr15:83525171-83525776	HepG2	liver:	n/a	chr15:83525504-83525515
27	MAX	chr15:83525335-83525688	HepG2	liver:	n/a	chr15:83525504-83525515
28	USF2	chr15:83525471-83525724	H1-hESC	embryonic stem cell:	n/a	n/a
29	FOXA1	chr15:83525076-83525583	HepG2	liver:	n/a	n/a
30	RCOR1	chr15:83525328-83525745	HepG2	liver:	n/a	n/a
31	TEAD4	chr15:83525110-83525797	HepG2	liver:	n/a	n/a
32	MXI1	chr15:83525321-83525780	HepG2	liver:	n/a	n/a
33	USF1	chr15:83525201-83525773	HepG2	liver:	n/a	chr15:83525501-83525512
34	NFIC	chr15:83525280-83525632	HepG2	liver:	n/a	n/a
35	EP300	chr15:83525201-83525687	HepG2	liver:	n/a	n/a
36	RXRA	chr15:83525215-83525626	HepG2	liver:	n/a	n/a
37	USF1	chr15:83525274-83525682	H1-hESC	embryonic stem cell:	n/a	chr15:83525501-83525512
38	SP1	chr15:83525067-83525674	HepG2	liver:	n/a	n/a
39	CEBPD	chr15:83525473-83525707	HepG2	liver:	n/a	n/a
40	MAX	chr15:83525478-83525808	K562	blood:	n/a	chr15:83525504-83525515
41	HEY1	chr15:83525428-83525743	HepG2	liver:	n/a	n/a
42	EP300	chr15:83525265-83525732	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:83518322..83521223-chr15:83524583..83526656,2	MCF-7	breast:
2	chr15:83524106..83526544-chr15:83528927..83531403,2	MCF-7	breast:

Variant related genes	Relation type
HOMER2	TF binding region
ENSG00000103942	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs11857233	0.85[CEU][hapmap]
rs1256430	0.84[CEU][hapmap];0.80[EUR][1000 genomes]
rs12907810	0.84[CEU][hapmap]
rs2061948	0.95[CEU][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[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	nsv469557	chr15:83417763-83560629	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
2	nsv482340	chr15:83417763-83560629	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
3	nsv471687	chr15:83417764-83560629	Enhancers Flanking Active TSS Genic enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83504600-83549400	Weak transcription	Psoas Muscle	Psoas
2	chr15:83506200-83527400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:83506200-83543800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr15:83507200-83539400	Weak transcription	Fetal Intestine Small	intestine
5	chr15:83513200-83532000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr15:83514400-83542800	Weak transcription	Primary T cells from cord blood	blood
7	chr15:83519000-83535800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr15:83519000-83541400	Weak transcription	Brain Anterior Caudate	brain
9	chr15:83519200-83528800	Weak transcription	Rectal Smooth Muscle	rectum
10	chr15:83519200-83536200	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr15:83519400-83525800	Strong transcription	Skeletal Muscle Male	skeletal muscle
12	chr15:83519600-83525600	Weak transcription	HSMMtube	muscle
13	chr15:83519600-83529600	Weak transcription	Brain Substantia Nigra	brain
14	chr15:83519800-83544400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr15:83520000-83543600	Weak transcription	HSMM	muscle
16	chr15:83520000-83549800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr15:83520000-83563800	Weak transcription	Brain Hippocampus Middle	brain
18	chr15:83520200-83542000	Weak transcription	Brain Angular Gyrus	brain
19	chr15:83520200-83547000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr15:83521800-83526400	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr15:83521800-83529400	Weak transcription	Primary B cells from cord blood	blood
22	chr15:83522400-83543400	Weak transcription	Fetal Muscle Trunk	muscle
23	chr15:83522600-83529000	Weak transcription	Fetal Kidney	kidney
24	chr15:83522600-83542200	Weak transcription	Fetal Muscle Leg	muscle
25	chr15:83523000-83527000	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr15:83523400-83525800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr15:83523400-83540000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr15:83523400-83540800	Weak transcription	Stomach Smooth Muscle	stomach
29	chr15:83523600-83526400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr15:83523600-83541400	Weak transcription	Fetal Stomach	stomach
31	chr15:83523600-83558000	Weak transcription	Esophagus	oesophagus
32	chr15:83523800-83527400	Weak transcription	Liver	Liver
33	chr15:83523800-83535600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr15:83524000-83525600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr15:83524000-83525600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr15:83524200-83525600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr15:83524200-83525800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr15:83524200-83525800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr15:83524200-83526200	Enhancers	HepG2	liver
40	chr15:83524400-83526000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
41	chr15:83524600-83525600	Enhancers	NH-A	brain
42	chr15:83524600-83527800	Weak transcription	Spleen	Spleen
43	chr15:83524600-83567800	Weak transcription	Left Ventricle	heart
44	chr15:83524800-83526800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr15:83524800-83528800	Weak transcription	Primary hematopoietic stem cells	blood
46	chr15:83524800-83534400	Weak transcription	Adipose Nuclei	Adipose
47	chr15:83524800-83563800	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr15:83525400-83525600	Genic enhancers	Gastric	stomach
49	chr15:83525400-83525800	Genic enhancers	Pancreas	Pancrea
50	chr15:83525400-83526600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links