Variant report

Variant	rs10853754
Chromosome Location	chr19:42252883-42252884
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr19:42252548-42254176	SK-N-MC	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:42252204..42254602-chr19:42292364..42294329,2	MCF-7	breast:

Variant related genes	Relation type
CEACAM6	TF binding region

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10403308	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10406899	0.85[ASN][1000 genomes]
rs10408799	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10411488	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10412553	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10414063	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10415317	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10415946	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10417322	0.84[ASN][1000 genomes]
rs10421687	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10425443	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11083637	0.82[ASN][1000 genomes]
rs1115885	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11667651	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11672324	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11878239	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11878262	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11881921	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12973096	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12985771	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1593086	0.84[ASN][1000 genomes]
rs2002926	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2113133	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2113134	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2161625	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3764577	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3764579	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3829668	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4239514	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4802128	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4802129	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4802130	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4803503	0.85[ASN][1000 genomes]
rs4803505	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4803506	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55997514	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7252828	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7255070	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs748249	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8106723	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs987066	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][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	nsv522854	chr19:42120283-42931004	Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
2	esv3425986	chr19:42212540-42259719	Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv579615	chr19:42221434-42310388	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	esv3430577	chr19:42247653-42285973	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv911774	chr19:42250325-42288821	Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:42250800-42253200	Enhancers	Primary neutrophils fromperipheralblood	blood
2	chr19:42251000-42254400	Weak transcription	Pancreas	Pancrea
3	chr19:42251400-42256200	Weak transcription	Esophagus	oesophagus
4	chr19:42252400-42253200	Enhancers	Colonic Mucosa	Colon
5	chr19:42252400-42253200	Enhancers	Stomach Mucosa	stomach
6	chr19:42252400-42254400	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr19:42252800-42254400	Weak transcription	Rectal Mucosa Donor 29	rectum

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