Variant report

Variant	rs2725804
Chromosome Location	chr15:39110832-39110833
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1004452	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1004865	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1004866	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2624259	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2725796	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2725797	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2912367	0.92[CEU][hapmap]
rs2912385	0.98[EUR][1000 genomes]
rs2958271	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046994	chr15:38806163-39239014	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv832975	chr15:39011915-39227590	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1054810	chr15:39019900-39578526	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv542359	chr15:39019900-39578526	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv904087	chr15:39065424-39117186	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv510659	chr15:39072035-39148591	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv904088	chr15:39081717-39117186	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv904089	chr15:39104689-39117186	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39109400-39111000	Enhancers	GM12878-XiMat	blood
2	chr15:39109400-39111000	Enhancers	HSMM	muscle
3	chr15:39109600-39111200	Enhancers	Fetal Heart	heart
4	chr15:39109600-39111800	Enhancers	Fetal Stomach	stomach
5	chr15:39109800-39111200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr15:39109800-39112600	Enhancers	Fetal Lung	lung
7	chr15:39110400-39111400	Weak transcription	Fetal Kidney	kidney
8	chr15:39110400-39112000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr15:39110400-39112400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr15:39110600-39111000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr15:39110600-39111000	Enhancers	Spleen	Spleen
12	chr15:39110600-39113200	Weak transcription	Osteobl	bone
13	chr15:39110800-39111000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr15:39110800-39113400	Weak transcription	NHDF-Ad	bronchial
15	chr15:39110800-39114200	Weak transcription	HUVEC	blood vessel
16	chr15:39110800-39115400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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