Variant report

Variant	rs12909708
Chromosome Location	chr15:34028651-34028652
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10519865	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10519868	1.00[CEU][hapmap];0.82[GIH][hapmap];0.82[MKK][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs11854331	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11856964	0.82[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11857010	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12899292	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs12900875	0.84[AMR][1000 genomes]
rs12902018	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12906433	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12906584	0.82[CEU][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes]
rs12906810	0.82[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.94[GIH][hapmap];0.94[JPT][hapmap];0.83[TSI][hapmap];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12908259	0.81[EUR][1000 genomes]
rs12908501	1.00[CEU][hapmap];0.82[GIH][hapmap];0.88[MKK][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes]
rs12910679	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.83[TSI][hapmap];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12913948	0.88[MKK][hapmap]
rs12914125	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12917360	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs1565936	1.00[CEU][hapmap];0.82[GIH][hapmap];0.88[MKK][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs1963234	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1963235	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.97[GIH][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap]
rs2278316	0.82[CEU][hapmap]
rs28460434	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34836946	0.81[EUR][1000 genomes]
rs71462876	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7172932	0.82[CEU][hapmap];0.82[GIH][hapmap]
rs8027687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.95[TSI][hapmap];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8029059	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9920068	1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[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

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33993000-34034200	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr15:33993000-34034600	Weak transcription	Colon Smooth Muscle	Colon
3	chr15:34008400-34031000	Weak transcription	Aorta	Aorta
4	chr15:34015200-34030000	Weak transcription	Brain Hippocampus Middle	brain
5	chr15:34017200-34030200	Weak transcription	Fetal Stomach	stomach
6	chr15:34018800-34030200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr15:34019400-34030200	Weak transcription	Brain Cingulate Gyrus	brain
8	chr15:34019800-34030200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr15:34019800-34034200	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr15:34021000-34031000	Weak transcription	Fetal Muscle Trunk	muscle
11	chr15:34023400-34030000	Weak transcription	Brain Substantia Nigra	brain
12	chr15:34024200-34030200	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr15:34024200-34034800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr15:34025200-34030400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr15:34025400-34032200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr15:34025400-34035200	Weak transcription	Fetal Muscle Leg	muscle
17	chr15:34026000-34030200	Weak transcription	Brain Anterior Caudate	brain
18	chr15:34028400-34030000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links