Variant report

Variant	rs12573796
Chromosome Location	chr10:61532482-61532483
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:61525173..61527335-chr10:61532089..61533998,2	K562	blood:
2	chr10:61522957..61525436-chr10:61531399..61534348,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10509114	0.81[CHD][hapmap]
rs10994001	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1127327	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12250019	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12250305	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12256258	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12569631	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12571632	0.92[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17199652	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17199988	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17202345	0.81[CHD][hapmap]
rs17789329	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17790289	0.92[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17790901	0.81[CHD][hapmap];0.86[GIH][hapmap]
rs2175913	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2271564	0.92[CEU][hapmap];0.85[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.95[TSI][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2393567	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4597020	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4948238	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs4948367	0.92[CEU][hapmap];0.81[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56232063	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56247613	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72815892	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72815897	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72817909	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72817910	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72817915	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73269619	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs12573796	CCDC6	cis	cerebellum	SCAN
rs12573796	IPMK	cis	cerebellum	SCAN
rs12573796	SLC16A9	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61531400-61532800	Enhancers	Rectal Mucosa Donor 31	rectum
2	chr10:61531800-61533200	Enhancers	Sigmoid Colon	Sigmoid Colon
3	chr10:61532000-61533000	Weak transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links