Variant report

Variant	rs11123154
Chromosome Location	chr2:113733431-113733432
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:113729798..113732687-chr2:113732770..113734292,2	MCF-7	breast:
2	chr2:113733169..113734691-chr2:113735565..113737676,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-IL36G-1	chr2:113733311-113733631	ucscGeneNc_uc002tjs_2

Variant related genes	Relation type
ENSG00000136688	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10178396	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10188477	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10188765	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10206205	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10221977	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10864908	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11123153	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11674086	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11690399	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11897907	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13029531	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13029703	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1562305	0.97[ASN][1000 genomes]
rs1867827	0.96[ASN][1000 genomes]
rs1867828	0.96[ASN][1000 genomes]
rs2305151	0.98[ASN][1000 genomes]
rs4254516	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs58593758	0.98[ASN][1000 genomes]
rs6747618	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7578034	0.94[ASN][1000 genomes]
rs7580877	0.96[ASN][1000 genomes]
rs879710	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs879711	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[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	nsv532471	chr2:113682449-113862981	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv997348	chr2:113688093-113986508	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv2880	chr2:113716802-113736921	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1007254	chr2:113726982-113887782	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv535894	chr2:113726982-113887782	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:113731200-113734800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr2:113731400-113734800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr2:113731400-113735000	Weak transcription	NHEK	skin
4	chr2:113731600-113735200	Weak transcription	HMEC	breast

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