Variant report

Variant	rs9569009
Chromosome Location	chr13:54880140-54880141
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11619753	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4378517	0.88[EUR][1000 genomes]
rs4884959	0.91[EUR][1000 genomes]
rs4884963	0.88[EUR][1000 genomes]
rs7318034	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7993923	0.88[EUR][1000 genomes]
rs9316711	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9563206	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9569007	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9569008	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9569010	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9569011	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9569012	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9591577	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3375545	chr13:54517432-54908108	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1051063	chr13:54777487-54997866	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv541778	chr13:54777487-54997866	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv471132	chr13:54788842-54885744	ZNF genes & repeats Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:54875400-54881400	Genic enhancers	HUES48 Cell Line	embryonic stem cell
2	chr13:54875800-54880600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr13:54878400-54881000	Genic enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr13:54878800-54881400	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr13:54878800-54881600	Genic enhancers	HUES6 Cell Line	embryonic stem cell
6	chr13:54879000-54881600	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr13:54879800-54881600	Genic enhancers	HUES64 Cell Line	embryonic stem cell
8	chr13:54880000-54880800	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr13:54880000-54881000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr13:54880000-54882000	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr13:54880000-54887000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr13:54880000-54892000	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr13:54880000-54929800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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

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