Variant report

Variant	rs2066275
Chromosome Location	chr10:93564315-93564316
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:93562465..93565733-chr10:93667895..93671227,3	MCF-7	breast:
2	chr10:93562756..93565303-chr10:93567938..93571115,3	K562	blood:

Variant related genes	Relation type
ENSG00000174721	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10509634	0.88[CEU][hapmap];0.80[AMR][1000 genomes]
rs10509636	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10748566	0.80[EUR][1000 genomes]
rs10786012	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10786014	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs10786019	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10881958	0.80[EUR][1000 genomes]
rs10881960	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10881966	0.88[CEU][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10881967	0.88[CEU][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10881969	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10881971	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10881975	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10881980	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10881981	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10881985	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10881989	0.90[CHB][hapmap];0.91[JPT][hapmap]
rs11186665	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11186668	0.92[EUR][1000 genomes]
rs11186697	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12220444	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12221087	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12412538	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12413090	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12413256	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12782935	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341263	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1417254	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1539040	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1592050	0.96[GIH][hapmap];0.82[TSI][hapmap]
rs1856927	0.80[EUR][1000 genomes]
rs1935029	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2050913	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2153654	0.80[EUR][1000 genomes]
rs2297960	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2901505	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3758499	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4390259	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61874730	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs61874731	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61876144	0.81[EUR][1000 genomes]
rs7082350	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7087365	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7897499	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7903827	0.80[AMR][1000 genomes]
rs7906805	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7912927	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7913826	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7913999	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7917710	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7919141	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7921354	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs2066275	TNKS2-AS1	cis	Heart Left Ventricle	GTEx
rs2066275	TNKS2	cis	Thyroid	GTEx
rs2066275	TNKS2	cis	parietal	SCAN
rs2066275	TNKS2	cis	Adipose Subcutaneous	GTEx
rs2066275	TNKS2	cis	Skin Sun Exposed Lower leg	GTEx
rs2066275	TNKS2	cis	Esophagus Muscularis	GTEx
rs2066275	TNKS2	cis	cerebellum	SCAN
rs2066275	TNKS2	cis	Nerve Tibial	GTEx
rs2066275	TPBG	trans	lymphoblastoid	seeQTL
rs2066275	MYOF	cis	cerebellum	SCAN

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93559000-93580800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:93559400-93572800	Weak transcription	Lung	lung
3	chr10:93559400-93573200	Weak transcription	Esophagus	oesophagus
4	chr10:93559600-93572400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr10:93559600-93578800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr10:93559600-93599200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr10:93560200-93565000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr10:93560200-93565000	Weak transcription	Right Ventricle	heart
9	chr10:93560200-93567200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr10:93560200-93572800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr10:93560200-93572800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr10:93560200-93577600	Weak transcription	Colonic Mucosa	Colon
13	chr10:93560200-93589400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr10:93560400-93564400	Weak transcription	GM12878-XiMat	blood
15	chr10:93560400-93564800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr10:93560400-93565000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr10:93560400-93565800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr10:93560400-93572600	Weak transcription	NH-A	brain
19	chr10:93560400-93572800	Weak transcription	A549	lung
20	chr10:93560400-93573200	Weak transcription	HSMMtube	muscle
21	chr10:93560400-93574400	Weak transcription	NHLF	lung
22	chr10:93560400-93577000	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr10:93560600-93564400	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr10:93560600-93565200	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr10:93560600-93568400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr10:93560800-93564800	Weak transcription	Adipose Nuclei	Adipose
27	chr10:93560800-93565000	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr10:93560800-93565000	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr10:93560800-93565000	Enhancers	HepG2	liver
30	chr10:93560800-93565000	Weak transcription	HUVEC	blood vessel
31	chr10:93560800-93565000	Weak transcription	Osteobl	bone
32	chr10:93560800-93565200	Weak transcription	Brain Hippocampus Middle	brain
33	chr10:93560800-93565600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr10:93560800-93573400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr10:93561000-93564800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr10:93561000-93565000	Weak transcription	Brain Angular Gyrus	brain
37	chr10:93561000-93565000	Weak transcription	HMEC	breast
38	chr10:93561000-93565400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
39	chr10:93561000-93572400	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr10:93561000-93572800	Weak transcription	Fetal Kidney	kidney
41	chr10:93561200-93565200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr10:93561200-93565600	Strong transcription	Primary monocytes fromperipheralblood	blood
43	chr10:93561200-93565600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
44	chr10:93561200-93565800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
45	chr10:93561200-93565800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr10:93561200-93565800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr10:93561200-93565800	Strong transcription	Fetal Thymus	thymus
48	chr10:93561400-93566000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
49	chr10:93561600-93564400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
50	chr10:93561600-93565200	Strong transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links