Variant report

Variant	rs2899427
Chromosome Location	chr15:49358610-49358611
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:49170319..49173081-chr15:49357557..49360503,2	K562	blood:

Variant related genes	Relation type
ENSG00000235883	Chromatin interaction
ENSG00000255302	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10431775	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1048975	1.00[CHB][hapmap];0.83[CHD][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs1054307	0.85[CEU][hapmap]
rs10775139	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11070682	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11070683	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11633810	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs11637991	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11638215	0.88[CEU][hapmap];0.82[TSI][hapmap]
rs11855740	0.88[CEU][hapmap]
rs11858114	1.00[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap]
rs12148348	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12438777	0.84[CHB][hapmap];0.84[JPT][hapmap]
rs12440709	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12442679	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12898691	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12898709	0.96[YRI][hapmap];0.94[AFR][1000 genomes]
rs12902875	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12904344	0.90[CHB][hapmap];0.85[JPT][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs16962057	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2086256	1.00[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap]
rs2247517	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs2413928	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2413931	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2413935	1.00[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap]
rs2457228	1.00[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap]
rs2580926	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs2663088	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs2663089	1.00[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap]
rs28505357	0.94[AFR][1000 genomes]
rs28575845	0.94[AFR][1000 genomes]
rs28676698	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28724568	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2899430	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs2899431	0.84[CHB][hapmap];0.84[JPT][hapmap]
rs2940745	0.81[ASN][1000 genomes]
rs3098613	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs3098619	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs3098620	1.00[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap]
rs3098621	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs3105858	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs3105861	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs3105864	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs3105866	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs4284578	0.88[CEU][hapmap]
rs4536401	0.88[CEU][hapmap]
rs4775795	0.88[CEU][hapmap]
rs481466	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs489813	0.89[CHB][hapmap]
rs568726	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs600863	1.00[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs604765	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs612803	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs62013266	0.92[AFR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs626295	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs626855	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs647118	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs6493346	0.88[CEU][hapmap];0.82[TSI][hapmap]
rs6493356	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs6493357	0.89[CHB][hapmap];0.82[JPT][hapmap]
rs679957	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs685172	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs7162602	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7165264	0.88[CEU][hapmap]
rs7167402	0.88[CEU][hapmap]
rs7179301	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs8029751	0.81[CHD][hapmap]
rs8029914	0.88[CEU][hapmap]
rs877007	0.88[CEU][hapmap]
rs9920070	0.94[AFR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2899427	SLC27A2	cis	parietal	SCAN
rs2899427	SECISBP2L	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49351400-49358800	Enhancers	Placenta	Placenta
2	chr15:49355800-49361000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:49357200-49358800	Weak transcription	Hela-S3	cervix
4	chr15:49357400-49361200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
5	chr15:49358200-49358800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr15:49358200-49359400	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr15:49358400-49358800	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr15:49358400-49359000	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr15:49358400-49359000	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr15:49358400-49359200	Enhancers	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links