Variant report

Variant	rs12908501
Chromosome Location	chr15:34040133-34040134
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10519865	1.00[CEU][hapmap]
rs10519868	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.96[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11856964	0.82[CEU][hapmap]
rs12232247	0.89[CHB][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap]
rs12898419	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12899292	1.00[CEU][hapmap];0.80[CHB][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12906584	0.82[CEU][hapmap];0.85[CHB][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes]
rs12906810	0.82[CEU][hapmap];0.81[GIH][hapmap]
rs12908259	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12909708	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];0.82[GIH][hapmap]
rs12913948	1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.84[TSI][hapmap]
rs12914125	1.00[CEU][hapmap]
rs12917360	0.82[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1565936	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.96[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17817650	1.00[ASW][hapmap]
rs1963235	1.00[CEU][hapmap]
rs2278309	0.84[JPT][hapmap]
rs2278315	0.88[CHB][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2278316	0.82[CEU][hapmap];0.89[CHB][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2288615	1.00[ASW][hapmap]
rs34836946	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71462876	0.83[AFR][1000 genomes]
rs7172932	0.82[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8027687	1.00[CEU][hapmap];0.82[GIH][hapmap];0.87[TSI][hapmap];0.87[EUR][1000 genomes]
rs8029059	1.00[CEU][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
3	nsv456789	chr15:34034421-34426618	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv568920	chr15:34034421-34426618	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv471235	chr15:34035529-34421951	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34032400-34041000	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr15:34034600-34048600	Weak transcription	Aorta	Aorta
3	chr15:34034800-34042200	Weak transcription	Brain Germinal Matrix	brain
4	chr15:34034800-34050400	Weak transcription	Colon Smooth Muscle	Colon
5	chr15:34035400-34042200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr15:34035400-34044600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr15:34035600-34040200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:34035600-34048600	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr15:34035600-34049000	Weak transcription	Fetal Stomach	stomach
10	chr15:34037400-34040200	Weak transcription	Stomach Smooth Muscle	stomach
11	chr15:34038400-34043200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr15:34038600-34041800	Weak transcription	Brain Hippocampus Middle	brain
13	chr15:34038600-34048000	Weak transcription	Brain Cingulate Gyrus	brain
14	chr15:34038800-34042600	Strong transcription	Brain Anterior Caudate	brain
15	chr15:34039600-34040200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr15:34039600-34042800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
17	chr15:34040000-34040400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr15:34040000-34040800	Strong transcription	Fetal Muscle Trunk	muscle
19	chr15:34040000-34042400	Strong transcription	Skeletal Muscle Male	skeletal muscle
20	chr15:34040000-34042600	Strong transcription	Fetal Muscle Leg	muscle

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