Variant report

Variant	rs11233649
Chromosome Location	chr11:83221390-83221391
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 93 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10501540	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs10751093	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs1075718	0.84[MEX][hapmap];0.81[TSI][hapmap]
rs10792686	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10898126	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10898127	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10898129	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10898133	0.83[CHB][hapmap]
rs11233632	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11233641	0.81[CHB][hapmap];0.84[JPT][hapmap]
rs11233654	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs11233657	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs11600016	0.81[JPT][hapmap]
rs11601048	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs11606666	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs11607886	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12223102	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs1225904	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1225905	0.80[EUR][1000 genomes]
rs1225906	0.81[EUR][1000 genomes]
rs1225907	0.81[EUR][1000 genomes]
rs1228630	0.81[EUR][1000 genomes]
rs1228632	0.83[TSI][hapmap]
rs12294291	0.92[CEU][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12794550	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs1367978	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs1367981	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1367982	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1432043	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs1432044	0.85[JPT][hapmap]
rs1432049	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs1432058	0.87[CEU][hapmap]
rs1469609	1.00[ASW][hapmap];0.92[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.98[TSI][hapmap];0.81[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1469610	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1864774	0.88[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.81[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1864775	0.81[JPT][hapmap]
rs1897372	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2009715	1.00[ASW][hapmap];0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.98[TSI][hapmap];0.91[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2195801	0.83[CEU][hapmap];0.88[TSI][hapmap]
rs2374424	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2436157	0.81[EUR][1000 genomes]
rs2512689	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3815986	0.88[CEU][hapmap];0.81[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3815987	0.84[MEX][hapmap];0.81[TSI][hapmap]
rs3815988	0.83[CEU][hapmap];0.88[TSI][hapmap]
rs4341564	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs473255	0.80[JPT][hapmap];0.81[EUR][1000 genomes]
rs477046	0.83[TSI][hapmap]
rs478048	0.83[TSI][hapmap]
rs483020	0.83[CEU][hapmap]
rs488600	0.83[MEX][hapmap];0.81[TSI][hapmap]
rs494071	0.83[MEX][hapmap];0.81[TSI][hapmap]
rs500059	0.88[TSI][hapmap]
rs500571	0.88[TSI][hapmap]
rs501139	0.84[CHD][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap];0.81[EUR][1000 genomes]
rs505998	0.88[TSI][hapmap]
rs506718	0.83[CEU][hapmap]
rs513020	0.83[MEX][hapmap];0.81[TSI][hapmap]
rs531531	0.84[CHD][hapmap];0.80[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap];0.80[EUR][1000 genomes]
rs533209	0.84[CHD][hapmap];0.80[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap];0.80[EUR][1000 genomes]
rs535809	0.83[MEX][hapmap];0.81[TSI][hapmap]
rs553935	0.86[TSI][hapmap]
rs558426	0.83[MEX][hapmap];0.81[TSI][hapmap]
rs575952	0.80[JPT][hapmap];0.81[EUR][1000 genomes]
rs581178	0.80[JPT][hapmap];0.81[EUR][1000 genomes]
rs583944	0.83[MEX][hapmap];0.81[TSI][hapmap]
rs590014	0.83[MEX][hapmap];0.81[TSI][hapmap]
rs600570	0.84[CHD][hapmap];0.80[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap];0.80[EUR][1000 genomes]
rs601826	0.84[CHD][hapmap];0.80[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap];0.80[EUR][1000 genomes]
rs603174	0.83[CEU][hapmap]
rs605303	0.83[CEU][hapmap]
rs605825	0.87[CEU][hapmap]
rs630105	0.81[CEU][hapmap];0.80[CHB][hapmap]
rs631277	0.80[JPT][hapmap];0.81[EUR][1000 genomes]
rs641838	0.84[GIH][hapmap];0.93[TSI][hapmap];0.81[EUR][1000 genomes]
rs6592116	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6592117	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6592119	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs661927	0.83[CEU][hapmap]
rs662966	0.80[JPT][hapmap];0.81[EUR][1000 genomes]
rs663399	0.84[CHD][hapmap];0.80[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap];0.81[EUR][1000 genomes]
rs666845	0.81[TSI][hapmap]
rs667730	0.83[CEU][hapmap]
rs671321	0.83[MEX][hapmap]
rs684857	0.88[TSI][hapmap]
rs694613	0.83[TSI][hapmap]
rs7127319	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs7127859	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs7131385	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7927629	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7948931	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs919667	0.87[MEX][hapmap];0.81[TSI][hapmap]
rs958246	0.92[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11233649	CCDC90B	cis	cerebellum	SCAN
rs11233649	CCDC90B	cis	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:83211600-83222200	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr11:83218000-83221600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr11:83219400-83222600	Enhancers	Fetal Intestine Large	intestine
4	chr11:83220200-83221400	Weak transcription	Brain Hippocampus Middle	brain
5	chr11:83220200-83222200	Weak transcription	Brain Cingulate Gyrus	brain
6	chr11:83220400-83221400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr11:83220400-83221400	Weak transcription	Hela-S3	cervix
8	chr11:83220400-83221600	Weak transcription	Brain Substantia Nigra	brain
9	chr11:83220600-83221400	Weak transcription	Brain Angular Gyrus	brain
10	chr11:83220600-83221400	Weak transcription	Brain Anterior Caudate	brain
11	chr11:83220800-83221600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
12	chr11:83221000-83221600	Weak transcription	HepG2	liver
13	chr11:83221200-83222600	Enhancers	Fetal Intestine Small	intestine
14	chr11:83221200-83223000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links