Variant report

Variant	rs12330401
Chromosome Location	chr3:155738576-155738577
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:155736256..155737849-chr3:155737965..155739970,2	K562	blood:

Variant related genes	Relation type
ENSG00000174930	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs12330366	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs13062621	0.98[ASN][1000 genomes]
rs28454940	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28653682	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34908778	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34921805	0.98[ASN][1000 genomes]
rs35639351	0.98[ASN][1000 genomes]
rs35917295	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56000398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56811290	0.81[ASN][1000 genomes]
rs56836738	0.88[ASN][1000 genomes]
rs60683789	0.89[ASN][1000 genomes]
rs61623796	0.81[ASN][1000 genomes]
rs62284909	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62284913	0.86[ASN][1000 genomes]
rs62284916	0.83[ASN][1000 genomes]
rs62284918	0.81[ASN][1000 genomes]
rs62284919	0.81[ASN][1000 genomes]
rs62284920	0.81[ASN][1000 genomes]
rs6767282	0.90[CEU][hapmap];0.91[EUR][1000 genomes]
rs6781558	0.90[CEU][hapmap];0.93[MKK][hapmap];0.92[TSI][hapmap];0.81[YRI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9813738	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9822881	0.88[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9836680	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9837458	0.88[EUR][1000 genomes]
rs9848466	0.88[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9850516	0.84[AMR][1000 genomes]
rs9866512	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9874263	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs12330401	SLC33A1	cis	parietal	SCAN
rs12330401	SLC33A1	cis	cerebellum	SCAN
rs12330401	RARRES1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155734200-155738600	Enhancers	Fetal Brain Male	brain
2	chr3:155735800-155739400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:155736000-155742600	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr3:155736200-155742600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr3:155737800-155738600	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr3:155737800-155739800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr3:155737800-155740200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:155738200-155748600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr3:155738400-155742600	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr3:155738400-155742800	Weak transcription	HUES48 Cell Line	embryonic stem cell

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