Variant report

Variant	rs1725502
Chromosome Location	chr19:38493881-38493882
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:38487801..38491019-chr19:38493039..38496104,5	MCF-7	breast:
2	chr19:38483729..38485746-chr19:38492627..38494202,2	MCF-7	breast:
3	chr19:38486249..38487777-chr19:38491320..38494076,2	K562	blood:
4	chr19:38397211..38400435-chr19:38493198..38497006,5	MCF-7	breast:
5	chr19:38490534..38492091-chr19:38493465..38495322,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171804	Chromatin interaction
ENSG00000105738	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11669092	0.85[ASN][1000 genomes]
rs7258557	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs833909	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs833918	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs833934	0.94[EUR][1000 genomes]
rs833935	0.94[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38470800-38494000	Weak transcription	Right Ventricle	heart
2	chr19:38474800-38513600	Weak transcription	Gastric	stomach
3	chr19:38482600-38494000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr19:38482600-38494000	Weak transcription	Esophagus	oesophagus
5	chr19:38485800-38496000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr19:38490400-38495800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr19:38490600-38494000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr19:38492400-38494000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr19:38492600-38494800	Enhancers	Primary T helper naive cells from peripheral blood	blood
10	chr19:38492800-38494400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr19:38493000-38495000	Enhancers	Primary T cells fromperipheralblood	blood
12	chr19:38493400-38494000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
13	chr19:38493400-38494000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr19:38493400-38494000	Enhancers	Fetal Muscle Leg	muscle
15	chr19:38493400-38494000	Enhancers	Pancreas	Pancrea
16	chr19:38493400-38494000	Enhancers	Psoas Muscle	Psoas
17	chr19:38493400-38494200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr19:38493400-38494600	Enhancers	Stomach Mucosa	stomach
19	chr19:38493400-38494800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr19:38493400-38494800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr19:38493400-38497800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
22	chr19:38493600-38494000	Enhancers	H1 Cell Line	embryonic stem cell
23	chr19:38493600-38494000	Enhancers	Primary monocytes fromperipheralblood	blood
24	chr19:38493600-38494000	Enhancers	Primary hematopoietic stem cells	blood
25	chr19:38493600-38494000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
26	chr19:38493600-38494000	Flanking Active TSS	Brain Germinal Matrix	brain
27	chr19:38493600-38494000	Enhancers	Left Ventricle	heart
28	chr19:38493600-38494000	Enhancers	Ovary	ovary
29	chr19:38493600-38494200	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
30	chr19:38493600-38494400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
31	chr19:38493600-38494400	Enhancers	Lung	lung
32	chr19:38493600-38494800	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr19:38493600-38495200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr19:38493600-38495200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr19:38493600-38495600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr19:38493600-38496000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr19:38493800-38494000	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
38	chr19:38493800-38494000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr19:38493800-38494000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr19:38493800-38494000	Enhancers	HUES48 Cell Line	embryonic stem cell
41	chr19:38493800-38494000	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr19:38493800-38494000	Enhancers	Primary neutrophils fromperipheralblood	blood
43	chr19:38493800-38494000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
44	chr19:38493800-38494000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
45	chr19:38493800-38494000	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr19:38493800-38494000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr19:38493800-38494000	Flanking Active TSS	Brain Anterior Caudate	brain
48	chr19:38493800-38494000	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
49	chr19:38493800-38494000	Flanking Active TSS	Brain Substantia Nigra	brain
50	chr19:38493800-38494000	Flanking Active TSS	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links