Variant report

No.	Distal block	Cell Line	Cell type
1	chr10:25928319..25929283-chr10:25971291..25972141,2	MCF-7	breast:
2	chr10:25401853..25402699-chr10:25971177..25972164,3	MCF-7	breast:
3	chr10:25928110..25928805-chr10:25971297..25972199,3	MCF-7	breast:
4	chr10:25968329..25970638-chr10:25971632..25973181,2	MCF-7	breast:
5	chr10:25948946..25949616-chr10:25971487..25972147,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GPR158-2	chr10:25971450-25972314	NR_108069

Variant related genes	Relation type
ENSG00000231422	Chromatin interaction

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

rs_ID	r²[population]
rs10764571	0.86[MKK][hapmap];0.85[YRI][hapmap]
rs10764579	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10828844	0.83[EUR][1000 genomes]
rs10828845	0.89[EUR][1000 genomes]
rs10828846	0.85[EUR][1000 genomes]
rs10828847	0.89[EUR][1000 genomes]
rs10828848	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10828849	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11014679	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12242832	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17737307	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2367978	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4749063	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6482511	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7080019	0.89[EUR][1000 genomes]
rs7093919	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7099373	0.88[EUR][1000 genomes]
rs7902742	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7908814	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7916640	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044482	chr10:25889919-25977270	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2290167	BMI1	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25962800-25993600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:25970800-25972400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr10:25971200-25972200	Enhancers	Fetal Heart	heart
4	chr10:25971800-25972200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr10:25971800-25972200	Enhancers	Pancreatic Islets	Pancreatic Islet
6	chr10:25971800-25972400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr10:25971800-25972400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr10:25972000-25972600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr10:25972000-25972800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr10:25972000-25973800	Weak transcription	Rectal Mucosa Donor 31	rectum

Quick Search: