Variant report

Variant	rs17272817
Chromosome Location	chr3:17085670-17085671
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TBC1D5-1	chr3:17085546-17085684	ENSG00000226441.1
2	lnc-TBC1D5-1	chr3:17085546-17085684	ENSG00000226441.2

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11549705	1.00[CHB][hapmap]
rs12054464	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12233493	0.87[ASN][1000 genomes]
rs12233538	1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12233541	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13066204	0.86[EUR][1000 genomes]
rs13073804	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13083189	1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13085309	0.85[EUR][1000 genomes]
rs13096536	1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1550518	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17200543	0.86[AMR][1000 genomes]
rs17272740	0.94[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs17272810	1.00[CHB][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17272831	1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28498854	0.95[EUR][1000 genomes]
rs28932173	0.83[ASN][1000 genomes]
rs34053933	0.86[EUR][1000 genomes]
rs34437014	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34824028	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35100600	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35307172	0.98[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3935970	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4290789	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55942882	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56060350	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58855245	0.86[EUR][1000 genomes]
rs59256854	0.86[EUR][1000 genomes]
rs62246031	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62247182	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6772001	1.00[CHB][hapmap]
rs6772050	1.00[CHB][hapmap]
rs6789069	1.00[CHB][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6796868	0.81[ASN][1000 genomes]
rs71627166	0.86[EUR][1000 genomes]
rs7616589	1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7652293	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7652874	0.84[EUR][1000 genomes]
rs9815788	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9822682	1.00[CHB][hapmap]
rs9834723	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9835432	0.85[EUR][1000 genomes]
rs9845137	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9858664	0.81[ASN][1000 genomes]
rs9876768	0.94[EUR][1000 genomes]

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17053800-17086800	Weak transcription	Fetal Stomach	stomach
2	chr3:17055400-17088800	Weak transcription	Thymus	Thymus
3	chr3:17055800-17087800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr3:17060000-17088600	Weak transcription	Pancreas	Pancrea
5	chr3:17070000-17093600	Weak transcription	Fetal Lung	lung
6	chr3:17073000-17088800	Weak transcription	Right Atrium	heart
7	chr3:17073000-17093000	Weak transcription	Spleen	Spleen
8	chr3:17076600-17086800	Weak transcription	Dnd41	blood
9	chr3:17077000-17086800	Weak transcription	Fetal Thymus	thymus
10	chr3:17077400-17094600	Weak transcription	Psoas Muscle	Psoas
11	chr3:17077800-17086800	Weak transcription	Ovary	ovary
12	chr3:17079800-17090000	Strong transcription	Primary B cells from cord blood	blood
13	chr3:17080800-17090200	Weak transcription	Fetal Muscle Leg	muscle
14	chr3:17081000-17088800	Weak transcription	Lung	lung
15	chr3:17081200-17087200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr3:17081200-17111400	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr3:17081400-17087400	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr3:17081600-17087200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr3:17081600-17090000	Strong transcription	Primary T cells from cord blood	blood
20	chr3:17081600-17090200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:17081800-17090000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr3:17082200-17086800	Weak transcription	Small Intestine	intestine
23	chr3:17082200-17087200	Weak transcription	Colonic Mucosa	Colon
24	chr3:17082200-17089800	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr3:17082400-17085800	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr3:17082400-17090200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr3:17082400-17092800	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr3:17082600-17085800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr3:17082600-17087000	Weak transcription	Fetal Intestine Small	intestine
30	chr3:17082600-17089400	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr3:17082600-17090000	Weak transcription	Fetal Brain Female	brain
32	chr3:17082600-17097000	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr3:17082800-17086800	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr3:17082800-17086800	Weak transcription	Rectal Smooth Muscle	rectum
35	chr3:17083000-17086600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr3:17083000-17096600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr3:17083000-17097200	Weak transcription	NH-A	brain
38	chr3:17083000-17109600	Weak transcription	Fetal Intestine Large	intestine
39	chr3:17083200-17090000	Weak transcription	Duodenum Mucosa	Duodenum
40	chr3:17083200-17111600	Weak transcription	Stomach Mucosa	stomach
41	chr3:17083400-17087000	Weak transcription	Left Ventricle	heart
42	chr3:17083800-17086800	Strong transcription	Primary monocytes fromperipheralblood	blood
43	chr3:17083800-17090400	Weak transcription	Stomach Smooth Muscle	stomach
44	chr3:17084000-17085800	Genic enhancers	Fetal Heart	heart
45	chr3:17084000-17089400	Strong transcription	Primary hematopoietic stem cells	blood
46	chr3:17084000-17089400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr3:17084000-17090600	Strong transcription	Monocytes-CD14+_RO01746	blood
48	chr3:17084000-17091200	Strong transcription	Primary T helper cells PMA-I stimulated	--
49	chr3:17084000-17094800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr3:17084200-17090200	Strong transcription	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links