Variant report

Variant	rs12148690
Chromosome Location	chr15:33931062-33931063
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10851886	0.87[CHB][hapmap]
rs11072570	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11853673	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12592397	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12593948	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12595559	1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs16973392	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17817434	0.81[TSI][hapmap]
rs62010505	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62010506	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs937302	0.91[CHB][hapmap];0.88[CHD][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs951443	0.81[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	esv34037	chr15:33732616-34049083	Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12148690	APBA2	cis	cerebellum	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33913000-33932200	Weak transcription	Brain Hippocampus Middle	brain
2	chr15:33915000-33959400	Weak transcription	Colon Smooth Muscle	Colon
3	chr15:33920400-33931200	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr15:33922200-33938400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr15:33923200-33955600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr15:33924200-33932000	Weak transcription	Brain Substantia Nigra	brain
7	chr15:33924400-33936400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:33925400-33931600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr15:33925800-33952600	Weak transcription	Brain Anterior Caudate	brain
10	chr15:33927800-33931600	Weak transcription	Brain Germinal Matrix	brain
11	chr15:33928800-33931400	Weak transcription	Stomach Smooth Muscle	stomach
12	chr15:33928800-33932000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr15:33928800-33936400	Weak transcription	Aorta	Aorta
14	chr15:33929600-33931400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr15:33930400-33931200	Strong transcription	Fetal Muscle Leg	muscle
16	chr15:33930400-33932200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr15:33930400-33932600	Enhancers	Primary B cells from peripheral blood	blood
18	chr15:33931000-33932200	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr15:33931000-33932400	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr15:33931000-33947000	Weak transcription	Fetal Muscle Trunk	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links