Variant report

No.	Distal block	Cell Line	Cell type
1	chr11:100902021..100907225-chr11:100907692..100911807,4	K562	blood:
2	chr11:100900831..100903332-chr11:101215245..101217524,2	MCF-7	breast:
3	chr11:100902657..100905816-chr11:100998444..101000527,3	MCF-7	breast:
4	chr11:100899477..100901886-chr11:100902227..100904920,5	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PGR-3	chr11:100900353-100903954	NONHSAT023847

Variant related genes	Relation type
ENSG00000082175	Chromatin interaction

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs471767	0.87[CEU][hapmap];0.81[GIH][hapmap];0.93[MEX][hapmap];0.81[TSI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs481548	0.93[EUR][1000 genomes]
rs486992	0.80[CEU][hapmap]
rs492457	0.87[CEU][hapmap]
rs495189	0.80[CEU][hapmap]
rs502465	0.86[CEU][hapmap]
rs503362	0.86[CEU][hapmap]
rs508533	0.80[CEU][hapmap]
rs519792	0.86[CEU][hapmap]
rs534200	0.86[CEU][hapmap]
rs543936	0.87[CEU][hapmap]
rs545845	0.87[CEU][hapmap]
rs552916	0.87[CEU][hapmap]
rs577615	0.86[CEU][hapmap]
rs578029	0.81[CEU][hapmap]
rs639838	0.95[CEU][hapmap];1.00[CHB][hapmap];0.82[GIH][hapmap];0.82[TSI][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs653752	0.80[CEU][hapmap]
rs660149	0.82[CEU][hapmap]
rs666207	0.86[CEU][hapmap]
rs679275	0.87[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048356	chr11:100713096-101058995	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv541154	chr11:100713096-101058995	Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs561610	ARHGAP42	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:100893800-100903200	Weak transcription	Aorta	Aorta
2	chr11:100899600-100903200	Weak transcription	Ovary	ovary
3	chr11:100900000-100903400	Enhancers	NHDF-Ad	bronchial
4	chr11:100900400-100905000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr11:100900800-100904800	Weak transcription	Psoas Muscle	Psoas
6	chr11:100902400-100903600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr11:100902600-100903400	Enhancers	Adipose Nuclei	Adipose

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