Variant report

Variant	rs946465
Chromosome Location	chr1:216840371-216840372
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10127480	0.82[ASW][hapmap];0.85[LWK][hapmap];0.81[MKK][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes]
rs10442689	1.00[CEU][hapmap];0.93[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10442690	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10746365	0.87[CEU][hapmap];1.00[GIH][hapmap]
rs10779274	1.00[CEU][hapmap];0.85[CHB][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10779275	0.91[LWK][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs10863263	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10863264	0.85[AFR][1000 genomes]
rs11117655	0.85[CHB][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12047925	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs12728283	1.00[CEU][hapmap];0.80[CHB][hapmap];0.93[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1339341	0.87[CEU][hapmap];0.80[CHB][hapmap];0.87[JPT][hapmap]
rs1416612	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1416613	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[GIH][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1856520	0.87[CEU][hapmap]
rs1856521	0.87[CEU][hapmap]
rs1953520	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2211118	0.87[CEU][hapmap];0.80[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];0.86[JPT][hapmap];0.84[TSI][hapmap]
rs2789725	0.86[GIH][hapmap]
rs2820883	0.86[GIH][hapmap]
rs2820884	0.87[CEU][hapmap]
rs2820885	0.86[CEU][hapmap];0.93[JPT][hapmap]
rs3900668	0.87[CEU][hapmap];0.80[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];0.87[JPT][hapmap];0.80[MEX][hapmap];0.84[TSI][hapmap]
rs4426040	1.00[CEU][hapmap];0.91[GIH][hapmap];0.96[TSI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4846620	0.92[YRI][hapmap];0.90[AFR][1000 genomes]
rs4846631	1.00[CEU][hapmap];0.95[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs730968	0.87[CEU][hapmap];0.85[CHB][hapmap];0.84[ASN][1000 genomes]
rs946466	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs946467	0.87[CEU][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs946465	TGFB2	cis	cerebellum	SCAN
rs946465	ANGEL2	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:216787400-216853800	Weak transcription	Pancreas	Pancrea
2	chr1:216814000-216856200	Weak transcription	Psoas Muscle	Psoas
3	chr1:216820400-216855400	Weak transcription	Fetal Heart	heart
4	chr1:216826000-216856200	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr1:216834200-216844000	Weak transcription	Left Ventricle	heart
6	chr1:216834400-216860400	Weak transcription	Right Ventricle	heart
7	chr1:216838200-216840600	Enhancers	Hela-S3	cervix
8	chr1:216838400-216843800	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr1:216838400-216850000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr1:216839600-216840400	Enhancers	Fetal Intestine Large	intestine
11	chr1:216839600-216841400	Enhancers	Placenta	Placenta
12	chr1:216840000-216850600	Weak transcription	Gastric	stomach
13	chr1:216840200-216863600	Weak transcription	Fetal Intestine Small	intestine

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