Variant report

Variant	rs4803455
Chromosome Location	chr19:41851509-41851510
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:41847648..41852200-chr19:41855915..41861192,6	MCF-7	breast:
2	chr19:41849690..41854029-chr19:41856026..41859802,4	K562	blood:
3	chr19:41846207..41848075-chr19:41848974..41852295,3	K562	blood:

Variant related genes	Relation type
ENSG00000142046	Chromatin interaction
ENSG00000255730	Chromatin interaction
ENSG00000105329	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10406816	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10416269	0.87[ASN][1000 genomes]
rs11666933	0.81[LWK][hapmap]
rs12461895	0.97[CHD][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs1549934	0.91[ASN][1000 genomes]
rs1989457	0.94[ASN][1000 genomes]
rs2241717	0.93[ASN][1000 genomes]
rs2288873	0.94[ASN][1000 genomes]
rs2288874	0.89[ASN][1000 genomes]
rs4803457	0.81[LWK][hapmap]
rs6508976	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7258445	0.93[ASN][1000 genomes]
rs7408955	0.86[ASN][1000 genomes]
rs8108632	0.84[ASN][1000 genomes]

Variant related diseases (count:1)

Disease	PMID	Source
Migraine	23793025	GWAS catalog

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs4803455	CCDC114	cis	parietal	SCAN
rs4803455	PSG1	cis	parietal	SCAN
rs4803455	VASP	cis	cerebellum	SCAN
rs4803455	LHB	cis	parietal	SCAN
rs4803455	ATF5	cis	cerebellum	SCAN

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:41818600-41854800	Strong transcription	Dnd41	blood
2	chr19:41832400-41856000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr19:41834200-41856600	Weak transcription	Brain Anterior Caudate	brain
4	chr19:41834200-41856800	Weak transcription	Fetal Kidney	kidney
5	chr19:41834400-41854800	Weak transcription	Small Intestine	intestine
6	chr19:41834800-41855600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr19:41834800-41856800	Weak transcription	Brain Cingulate Gyrus	brain
8	chr19:41834800-41856800	Weak transcription	Brain Substantia Nigra	brain
9	chr19:41835000-41854400	Strong transcription	Fetal Stomach	stomach
10	chr19:41835000-41856600	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr19:41835000-41856800	Weak transcription	Brain Angular Gyrus	brain
12	chr19:41835600-41856000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr19:41836000-41855200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr19:41837800-41855800	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr19:41838600-41856600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr19:41840400-41854600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr19:41840800-41855800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr19:41841800-41856600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr19:41843400-41854600	Strong transcription	HUVEC	blood vessel
20	chr19:41843800-41852200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr19:41844000-41853800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr19:41844200-41854200	Strong transcription	Thymus	Thymus
23	chr19:41845800-41856000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr19:41846400-41854400	Genic enhancers	Primary T helper cells fromperipheralblood	blood
25	chr19:41846400-41854800	Genic enhancers	Primary T cells fromperipheralblood	blood
26	chr19:41846400-41855000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr19:41846400-41855000	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
28	chr19:41846600-41854200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr19:41846600-41854400	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
30	chr19:41846800-41852000	Genic enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr19:41846800-41854400	Strong transcription	Stomach Smooth Muscle	stomach
32	chr19:41846800-41854800	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
33	chr19:41847000-41855800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr19:41847400-41852400	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
35	chr19:41847400-41853600	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
36	chr19:41847600-41853600	Strong transcription	Placenta Amnion	Placenta Amnion
37	chr19:41847600-41854400	Strong transcription	Osteobl	bone
38	chr19:41848200-41851800	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr19:41848200-41854000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr19:41848200-41854000	Strong transcription	Placenta	Placenta
41	chr19:41848200-41854400	Strong transcription	Sigmoid Colon	Sigmoid Colon
42	chr19:41848200-41854600	Strong transcription	Fetal Thymus	thymus
43	chr19:41848200-41855000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr19:41848200-41855200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr19:41848200-41856600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr19:41848200-41856600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr19:41848200-41857000	Weak transcription	Pancreas	Pancrea
48	chr19:41848400-41857000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr19:41848800-41855000	Strong transcription	K562	blood
50	chr19:41848800-41856000	Strong transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links