Variant report

Variant	rs3794593
Chromosome Location	chr15:34381967-34381968
allele	A/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	RUNX3	chr15:34381960-34382420	GM12878	blood:	n/a	n/a
2	RUNX3	chr15:34381953-34382334	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:34379930..34382933-chr15:34385055..34387816,3	K562	blood:
2	chr15:34376719..34378832-chr15:34379858..34382151,2	K562	blood:
3	chr15:34378589..34383223-chr15:34392480..34394966,4	K562	blood:
4	chr15:34376957..34379115-chr15:34380022..34382182,3	K562	blood:

Variant related genes	Relation type
ENSG00000243094	TF binding region
ENSG00000134153	Chromatin interaction
ENSG00000243094	Chromatin interaction
ENSG00000182405	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11072954	0.91[EUR][1000 genomes]
rs11634597	0.84[EUR][1000 genomes]
rs11853879	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11856158	0.96[EUR][1000 genomes]
rs12592547	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12592856	0.84[EUR][1000 genomes]
rs12594048	0.84[EUR][1000 genomes]
rs12903028	0.84[EUR][1000 genomes]
rs1436923	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16958770	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1865925	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2339374	0.84[EUR][1000 genomes]
rs2568532	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576308	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576310	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28376576	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4288968	0.88[ASN][1000 genomes]
rs4468578	0.84[EUR][1000 genomes]
rs4780214	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4780215	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4780216	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs522397	0.82[ASN][1000 genomes]
rs56310728	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57205845	0.85[ASN][1000 genomes]
rs623941	0.83[ASN][1000 genomes]
rs6495519	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7161835	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7163226	0.95[EUR][1000 genomes]
rs7182085	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs721122	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73374335	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8028703	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8038259	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv456789	chr15:34034421-34426618	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv568920	chr15:34034421-34426618	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv471235	chr15:34035529-34421951	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1035579	chr15:34363159-34501115	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34358600-34393000	Weak transcription	Aorta	Aorta
2	chr15:34368000-34391600	Weak transcription	Right Ventricle	heart
3	chr15:34368800-34392400	Weak transcription	Psoas Muscle	Psoas
4	chr15:34369600-34391600	Weak transcription	NHEK	skin
5	chr15:34372800-34393200	Weak transcription	Colonic Mucosa	Colon
6	chr15:34373600-34392400	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr15:34374200-34383800	Strong transcription	Primary T helper cells fromperipheralblood	blood
8	chr15:34374200-34392800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:34374400-34391600	Weak transcription	Fetal Brain Male	brain
10	chr15:34374600-34382600	Strong transcription	Primary T cells fromperipheralblood	blood
11	chr15:34374600-34382600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr15:34374800-34382000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr15:34374800-34382600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
14	chr15:34374800-34383000	Strong transcription	Primary T helper cells PMA-I stimulated	--
15	chr15:34374800-34384200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr15:34374800-34385600	Strong transcription	Primary monocytes fromperipheralblood	blood
17	chr15:34374800-34391600	Weak transcription	Small Intestine	intestine
18	chr15:34374800-34393000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr15:34375000-34382000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
20	chr15:34375000-34382800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr15:34375000-34386800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr15:34375000-34392800	Weak transcription	Fetal Heart	heart
23	chr15:34375000-34393000	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr15:34375200-34382600	Strong transcription	Primary neutrophils fromperipheralblood	blood
25	chr15:34375400-34382600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr15:34375400-34382600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr15:34375400-34382600	Strong transcription	Fetal Muscle Trunk	muscle
28	chr15:34375400-34382800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr15:34375400-34388800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr15:34375400-34388800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr15:34375600-34382200	Strong transcription	Placenta	Placenta
32	chr15:34375600-34382600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr15:34375600-34382600	Strong transcription	Primary B cells from peripheral blood	blood
34	chr15:34375600-34382600	Strong transcription	Rectal Mucosa Donor 29	rectum
35	chr15:34375600-34382800	Strong transcription	HUES64 Cell Line	embryonic stem cell
36	chr15:34375600-34382800	Strong transcription	Liver	Liver
37	chr15:34375600-34382800	Strong transcription	Fetal Intestine Large	intestine
38	chr15:34375600-34383000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr15:34375600-34389000	Strong transcription	Monocytes-CD14+_RO01746	blood
40	chr15:34375800-34382400	Strong transcription	HepG2	liver
41	chr15:34375800-34382600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr15:34375800-34382800	Strong transcription	Dnd41	blood
43	chr15:34375800-34383200	Strong transcription	Rectal Mucosa Donor 31	rectum
44	chr15:34375800-34391600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
45	chr15:34376000-34382600	Strong transcription	Primary T cells from cord blood	blood
46	chr15:34376000-34383000	Weak transcription	Brain Angular Gyrus	brain
47	chr15:34376000-34390200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr15:34376000-34392800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr15:34376600-34382800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr15:34376800-34386800	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links