Variant report

Variant	rs12900819
Chromosome Location	chr15:49303451-49303452
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11070673	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11854184	1.00[YRI][hapmap]
rs11857773	0.80[ASN][1000 genomes]
rs11858814	0.88[CEU][hapmap];0.89[CHB][hapmap];0.82[JPT][hapmap]
rs12901353	0.84[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs12905094	0.88[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap]
rs17393761	0.82[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs17435932	0.88[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs17472989	0.88[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap]
rs2289389	0.88[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap]
rs2413926	0.96[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34748066	0.88[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs4775794	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7164309	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8043493	0.88[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12900819	COPS2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49268800-49309200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr15:49282800-49333400	Weak transcription	A549	lung
3	chr15:49283600-49337600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr15:49285000-49329000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:49287200-49308000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr15:49287600-49308000	Weak transcription	HepG2	liver
7	chr15:49289200-49336400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr15:49289400-49303800	Weak transcription	Psoas Muscle	Psoas
9	chr15:49289800-49317000	Weak transcription	Stomach Mucosa	stomach
10	chr15:49291400-49307400	Weak transcription	Gastric	stomach
11	chr15:49291400-49307400	Weak transcription	Pancreas	Pancrea
12	chr15:49291400-49308000	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr15:49292200-49307800	Weak transcription	NHEK	skin
14	chr15:49292800-49308000	Weak transcription	Fetal Heart	heart
15	chr15:49292800-49308000	Weak transcription	Small Intestine	intestine
16	chr15:49297000-49309800	Strong transcription	Duodenum Mucosa	Duodenum
17	chr15:49297200-49305000	Strong transcription	HUES64 Cell Line	embryonic stem cell
18	chr15:49297200-49305200	Strong transcription	Fetal Brain Female	brain
19	chr15:49297200-49305400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr15:49297200-49306000	Strong transcription	Fetal Intestine Large	intestine
21	chr15:49297200-49310000	Strong transcription	Liver	Liver
22	chr15:49297400-49305400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr15:49297400-49310200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr15:49297400-49310800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr15:49297600-49309400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr15:49297800-49309800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr15:49298000-49304600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr15:49298000-49305200	Strong transcription	HUES48 Cell Line	embryonic stem cell
29	chr15:49298000-49305400	Strong transcription	HUES6 Cell Line	embryonic stem cell
30	chr15:49298000-49305600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
31	chr15:49298000-49308000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr15:49298000-49309800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr15:49298000-49311400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr15:49298000-49328400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr15:49298000-49328800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr15:49298200-49304800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr15:49298200-49304800	Strong transcription	Stomach Smooth Muscle	stomach
38	chr15:49298200-49305200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr15:49298200-49305200	Strong transcription	Skeletal Muscle Male	skeletal muscle
40	chr15:49298200-49306800	Strong transcription	Duodenum Smooth Muscle	Duodenum
41	chr15:49298200-49308800	Strong transcription	Fetal Thymus	thymus
42	chr15:49298200-49309600	Strong transcription	Primary T cells from cord blood	blood
43	chr15:49298200-49309600	Strong transcription	Brain Inferior Temporal Lobe	brain
44	chr15:49298200-49309600	Strong transcription	Rectal Mucosa Donor 31	rectum
45	chr15:49298200-49309800	Strong transcription	Fetal Lung	lung
46	chr15:49298200-49309800	Strong transcription	Skeletal Muscle Female	skeletal muscle
47	chr15:49298200-49310000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
48	chr15:49298200-49310200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr15:49298200-49310200	Strong transcription	Osteobl	bone
50	chr15:49298200-49314600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links