Variant report

Variant	rs28576113
Chromosome Location	chr15:54490212-54490213
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10083589	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10083599	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10083724	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12593199	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13329258	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13329461	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13380420	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16974298	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1897049	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1897050	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1897051	0.96[EUR][1000 genomes]
rs2414296	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28412332	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28420735	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28542531	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28557452	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28569946	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28755986	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7181949	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052235	chr15:53677524-54618723	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv542388	chr15:53677524-54618723	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv817539	chr15:54132584-55095235	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv428637	chr15:54279125-54500755	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv1043666	chr15:54415970-54548495	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1043823	chr15:54468477-54532985	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv18484	chr15:54490191-54496351	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:54489400-54492400	Weak transcription	Fetal Lung	lung
2	chr15:54490000-54490400	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr15:54490000-54490800	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr15:54490200-54490600	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr15:54490200-54490600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr15:54490200-54490800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr15:54490200-54490800	Flanking Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:54490200-54490800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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