Variant report

Variant	rs12914876
Chromosome Location	chr15:49438415-49438416
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:49153876..49154623-chr15:49437940..49438792,2	MCF-7	breast:
2	chr15:49429242..49431810-chr15:49437695..49440967,3	K562	blood:
3	chr15:49410175..49412342-chr15:49437300..49438886,2	K562	blood:
4	chr15:49432624..49435848-chr15:49436150..49438690,3	K562	blood:
5	chr15:49337063..49339698-chr15:49438112..49439651,2	MCF-7	breast:
6	chr15:49438116..49443617-chr15:49443933..49448726,7	K562	blood:
7	chr15:49322333..49324034-chr15:49436776..49439133,2	K562	blood:
8	chr15:49438066..49440274-chr15:49455575..49457158,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000156958	Chromatin interaction
ENSG00000200120	Chromatin interaction
ENSG00000259467	Chromatin interaction
ENSG00000166200	Chromatin interaction
ENSG00000138593	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11853969	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs11854039	0.88[AFR][1000 genomes]
rs11854184	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11854557	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs11857515	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11858814	1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs12899422	0.80[AFR][1000 genomes]
rs12901353	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs12901929	0.88[AFR][1000 genomes]
rs12902096	0.88[AFR][1000 genomes]
rs12902271	1.00[YRI][hapmap]
rs12905094	1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs12905477	0.88[AFR][1000 genomes]
rs17435932	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs17472989	1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs1961393	0.88[AFR][1000 genomes]
rs2289389	1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs34562714	0.88[AFR][1000 genomes]
rs34748066	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs36100631	0.88[AFR][1000 genomes]
rs4774538	0.88[AFR][1000 genomes]
rs4775794	1.00[YRI][hapmap]
rs4775806	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs4775808	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs55979115	0.88[AFR][1000 genomes]
rs62009834	0.88[AFR][1000 genomes]
rs7180168	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs7497335	0.81[AFR][1000 genomes]
rs8043493	1.00[YRI][hapmap];0.80[AFR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12914876	COPS2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49403400-49440200	Weak transcription	Pancreas	Pancrea
2	chr15:49405600-49441800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:49413600-49447000	Weak transcription	Stomach Mucosa	stomach
4	chr15:49419000-49445800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:49420200-49447000	Weak transcription	Spleen	Spleen
6	chr15:49420400-49447000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr15:49429200-49447000	Weak transcription	Esophagus	oesophagus
8	chr15:49431000-49438600	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr15:49433800-49446600	Weak transcription	Fetal Intestine Small	intestine
10	chr15:49434800-49438800	Weak transcription	Psoas Muscle	Psoas
11	chr15:49435200-49445800	Weak transcription	Fetal Heart	heart
12	chr15:49435600-49446600	Weak transcription	Right Ventricle	heart
13	chr15:49435800-49438600	Weak transcription	Rectal Smooth Muscle	rectum
14	chr15:49435800-49438600	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr15:49435800-49438600	Weak transcription	Small Intestine	intestine
16	chr15:49435800-49440000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr15:49435800-49440200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr15:49435800-49440400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr15:49435800-49440600	Weak transcription	Brain Anterior Caudate	brain
20	chr15:49435800-49440600	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr15:49435800-49440800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr15:49435800-49442800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr15:49435800-49442800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr15:49435800-49443000	Weak transcription	Colonic Mucosa	Colon
25	chr15:49435800-49443000	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr15:49435800-49445400	Weak transcription	Brain Germinal Matrix	brain
27	chr15:49435800-49445600	Weak transcription	Fetal Brain Male	brain
28	chr15:49435800-49445600	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr15:49435800-49446000	Weak transcription	Fetal Kidney	kidney
30	chr15:49435800-49446000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr15:49435800-49446600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr15:49435800-49446600	Weak transcription	HSMMtube	muscle
33	chr15:49435800-49446800	Weak transcription	Aorta	Aorta
34	chr15:49435800-49446800	Weak transcription	Fetal Muscle Trunk	muscle
35	chr15:49436000-49438600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr15:49436000-49438600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr15:49436000-49438600	Weak transcription	Duodenum Mucosa	Duodenum
38	chr15:49436000-49438800	Weak transcription	Ovary	ovary
39	chr15:49436000-49439600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr15:49436000-49439600	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr15:49436000-49440000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr15:49436000-49440400	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr15:49436000-49440600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr15:49436000-49444800	Weak transcription	Lung	lung
45	chr15:49436000-49445200	Weak transcription	Thymus	Thymus
46	chr15:49436000-49446000	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr15:49436000-49446600	Weak transcription	Fetal Stomach	stomach
48	chr15:49436000-49446600	Weak transcription	Fetal Thymus	thymus
49	chr15:49436000-49446800	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr15:49436000-49446800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links