Variant report

Variant	rs12899100
Chromosome Location	chr15:34101669-34101670
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10438378	0.82[CEU][hapmap]
rs11853646	0.82[CEU][hapmap]
rs11855356	0.82[CEU][hapmap]
rs12898408	1.00[YRI][hapmap]
rs12906601	1.00[YRI][hapmap]
rs12911767	1.00[AFR][1000 genomes]
rs12914825	1.00[YRI][hapmap]
rs16958281	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs16958299	0.82[CEU][hapmap]
rs34531207	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35293080	1.00[AFR][1000 genomes]
rs4780184	1.00[YRI][hapmap]
rs56163067	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6495271	0.82[CEU][hapmap]
rs66550019	1.00[AFR][1000 genomes]
rs7170693	0.82[CEU][hapmap]
rs7176081	0.82[CEU][hapmap]
rs9302282	0.85[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 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	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
3	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
4	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
5	nsv568921	chr15:34046635-34247622	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv1044844	chr15:34065524-34296829	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 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	chr15:34061600-34121000	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr15:34071400-34107200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr15:34073800-34102800	Weak transcription	Colon Smooth Muscle	Colon
4	chr15:34080800-34105000	Weak transcription	Aorta	Aorta
5	chr15:34081000-34102400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr15:34090600-34151800	Weak transcription	Brain Cingulate Gyrus	brain
7	chr15:34091000-34108800	Weak transcription	Brain Hippocampus Middle	brain
8	chr15:34091800-34151000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr15:34094600-34105800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr15:34095000-34105000	Weak transcription	Brain Anterior Caudate	brain
11	chr15:34095200-34103600	Weak transcription	Psoas Muscle	Psoas
12	chr15:34095400-34118400	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr15:34097800-34123800	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr15:34099600-34109800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr15:34099800-34101800	Weak transcription	Stomach Smooth Muscle	stomach
16	chr15:34100000-34102200	Weak transcription	Fetal Muscle Trunk	muscle
17	chr15:34100400-34102800	Weak transcription	Fetal Muscle Leg	muscle
18	chr15:34101000-34101800	Enhancers	Fetal Stomach	stomach
19	chr15:34101400-34103200	Strong transcription	Skeletal Muscle Male	skeletal muscle
20	chr15:34101600-34103000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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