Variant report

Variant	rs11955306
Chromosome Location	chr5:178217756-178217757
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:178217515..178219756-chr5:178222476..178225165,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000250420	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10794696	0.86[EUR][1000 genomes]
rs11249573	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11249577	0.80[EUR][1000 genomes]
rs11249578	0.82[EUR][1000 genomes]
rs11737921	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12518860	0.81[AFR][1000 genomes]
rs13158304	0.90[EUR][1000 genomes]
rs13167830	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13177350	0.85[EUR][1000 genomes]
rs13182067	1.00[ASN][1000 genomes]
rs13185217	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13186608	1.00[ASN][1000 genomes]
rs34397660	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34557468	0.82[EUR][1000 genomes]
rs34727982	0.86[EUR][1000 genomes]
rs35041056	0.86[EUR][1000 genomes]
rs35494943	1.00[ASN][1000 genomes]
rs35506175	0.84[EUR][1000 genomes]
rs3889597	0.82[AFR][1000 genomes]
rs4073865	0.80[EUR][1000 genomes]
rs4700791	0.82[EUR][1000 genomes]
rs4700792	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4700795	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4701033	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4701066	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4701097	0.85[EUR][1000 genomes]
rs4701147	0.94[CEU][hapmap]
rs59406591	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60372900	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66583878	0.86[EUR][1000 genomes]
rs6876756	0.80[EUR][1000 genomes]
rs7444923	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7711127	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9686220	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[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	nsv1031666	chr5:177988601-178236068	Bivalent/Poised TSS Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031206	chr5:178149292-178283614	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv537973	chr5:178149292-178283614	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv462573	chr5:178180299-178241495	Bivalent Enhancer ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv600452	chr5:178180299-178241495	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178166600-178224000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr5:178215800-178217800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr5:178216600-178217800	Enhancers	Placenta	Placenta
4	chr5:178216600-178218000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr5:178216600-178218000	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr5:178216800-178218000	Enhancers	Monocytes-CD14+_RO01746	blood
7	chr5:178217400-178218000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr5:178217400-178218000	Enhancers	Esophagus	oesophagus
9	chr5:178217600-178217800	ZNF genes & repeats	Gastric	stomach
10	chr5:178217600-178217800	Enhancers	Placenta Amnion	Placenta Amnion
11	chr5:178217600-178218000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived

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