Variant report

Variant	rs11965970
Chromosome Location	chr6:143904494-143904495
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:143899013..143902329-chr6:143903736..143905850,3	K562	blood:
2	chr6:143897560..143900872-chr6:143902459..143905862,4	K562	blood:
3	chr6:143903484..143905278-chr6:143906828..143909532,2	MCF-7	breast:
4	chr6:143903236..143905601-chr6:143907118..143909608,2	K562	blood:

Extended variants
information (count: 117 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:117)

rs_ID	r²[population]
rs1054752	0.82[ASN][1000 genomes]
rs10782290	0.83[ASN][1000 genomes]
rs10979	0.95[CHB][hapmap];0.91[CHD][hapmap];0.82[ASN][1000 genomes]
rs11155300	0.83[ASN][1000 genomes]
rs11155305	0.88[ASN][1000 genomes]
rs1133477	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11961765	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11961814	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11961857	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11961870	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11961908	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11961927	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11970288	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11970358	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11970446	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12176035	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12191231	0.82[ASN][1000 genomes]
rs12191837	0.83[ASN][1000 genomes]
rs12203151	0.80[ASN][1000 genomes]
rs12208649	0.83[ASN][1000 genomes]
rs12211659	0.83[ASN][1000 genomes]
rs12212011	0.83[ASN][1000 genomes]
rs12215667	0.83[ASN][1000 genomes]
rs12526234	0.82[ASN][1000 genomes]
rs12529563	0.83[CEU][hapmap]
rs12738	0.82[ASN][1000 genomes]
rs13194847	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];0.83[JPT][hapmap];0.92[MEX][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13196809	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13197332	0.82[ASN][1000 genomes]
rs13198159	0.82[ASN][1000 genomes]
rs13200147	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13200325	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13203973	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13211390	0.82[ASN][1000 genomes]
rs13212626	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13216148	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1416205	0.82[ASN][1000 genomes]
rs1416206	0.82[ASN][1000 genomes]
rs1416207	0.82[ASN][1000 genomes]
rs28479556	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34158186	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34199303	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34320641	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34373782	0.82[ASN][1000 genomes]
rs34703787	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34973979	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35205240	0.82[ASN][1000 genomes]
rs35317420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35705085	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35826562	0.82[ASN][1000 genomes]
rs35971628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3748072	0.95[CHB][hapmap];0.82[ASN][1000 genomes]
rs3762003	0.83[CEU][hapmap]
rs4142501	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55662387	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55998335	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56260812	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570565	0.93[ASN][1000 genomes]
rs6570566	0.93[ASN][1000 genomes]
rs66648313	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905264	0.83[ASN][1000 genomes]
rs6907272	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6924422	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6924719	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6924940	0.93[ASN][1000 genomes]
rs6924967	0.93[ASN][1000 genomes]
rs6927128	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7753967	0.82[ASN][1000 genomes]
rs7754452	0.82[ASN][1000 genomes]
rs7774497	0.82[ASN][1000 genomes]
rs9285500	0.91[CHB][hapmap];0.83[ASN][1000 genomes]
rs9321922	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9321923	0.83[ASN][1000 genomes]
rs9373394	0.82[ASN][1000 genomes]
rs9376756	0.90[CHB][hapmap];0.90[CHD][hapmap]
rs9376761	0.82[ASN][1000 genomes]
rs9376762	0.82[ASN][1000 genomes]
rs9376763	0.82[ASN][1000 genomes]
rs9376764	0.82[ASN][1000 genomes]
rs9386032	0.82[ASN][1000 genomes]
rs9386033	0.82[ASN][1000 genomes]
rs9386035	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9386036	0.82[ASN][1000 genomes]
rs9386037	0.82[ASN][1000 genomes]
rs9386038	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9390104	0.82[ASN][1000 genomes]
rs9390106	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9390109	0.83[ASN][1000 genomes]
rs9390110	0.83[ASN][1000 genomes]
rs9390111	0.83[ASN][1000 genomes]
rs9390112	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9390113	0.83[ASN][1000 genomes]
rs9399447	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9399448	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9403504	0.80[ASN][1000 genomes]
rs9403505	0.90[CHB][hapmap];0.91[CHD][hapmap];0.80[ASN][1000 genomes]
rs9403506	0.82[ASN][1000 genomes]
rs9403507	0.95[CHB][hapmap];0.85[CHD][hapmap];0.82[ASN][1000 genomes]
rs9403508	0.82[ASN][1000 genomes]
rs9403509	0.82[ASN][1000 genomes]
rs9403511	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9403512	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9484767	0.82[ASN][1000 genomes]
rs9484768	0.82[ASN][1000 genomes]
rs9484769	0.83[ASN][1000 genomes]
rs9484770	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9484771	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9484773	0.83[ASN][1000 genomes]
rs9484776	0.82[ASN][1000 genomes]
rs9496671	0.90[CHB][hapmap];0.91[CHD][hapmap];0.80[ASN][1000 genomes]
rs9496676	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9496678	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9496679	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9496680	0.81[CHB][hapmap]
rs9496681	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9496682	0.90[ASN][1000 genomes]
rs9496683	0.90[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11965970	SF3B5	cis	parietal	SCAN

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143866800-143904600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr6:143894400-143907600	Weak transcription	Stomach Mucosa	stomach
3	chr6:143895600-143918200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr6:143897600-143907600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:143899400-143918000	Weak transcription	Spleen	Spleen
6	chr6:143899800-143919200	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr6:143900400-143907000	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr6:143900800-143918200	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr6:143901000-143905000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr6:143901000-143907400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:143901200-143918000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr6:143901400-143904800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:143901400-143906200	Weak transcription	Fetal Muscle Trunk	muscle
14	chr6:143902400-143905000	Weak transcription	Left Ventricle	heart
15	chr6:143903200-143905200	Enhancers	Hela-S3	cervix
16	chr6:143903200-143912600	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr6:143903400-143904800	Weak transcription	NH-A	brain
18	chr6:143903400-143905800	Weak transcription	Fetal Intestine Small	intestine
19	chr6:143903400-143911800	Weak transcription	Fetal Intestine Large	intestine
20	chr6:143903400-143918200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr6:143903600-143907600	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr6:143903600-143912200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr6:143903600-143918600	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr6:143903800-143904800	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr6:143903800-143904800	Weak transcription	Osteobl	bone
26	chr6:143903800-143905400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:143904200-143905600	Enhancers	Placenta	Placenta
28	chr6:143904400-143905800	Enhancers	NHDF-Ad	bronchial
29	chr6:143904400-143908000	Enhancers	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links