Variant report

Variant	rs11013369
Chromosome Location	chr10:23583006-23583007
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:23446674..23448836-chr10:23582103..23583619,2	MCF-7	breast:
2	chr10:23446542..23448186-chr10:23581789..23584081,25	MCF-7	breast:
3	chr10:23582252..23585131-chr10:23727584..23729131,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165312	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10828425	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10828427	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10828431	0.85[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap]
rs11013353	0.86[AFR][1000 genomes]
rs11013354	0.86[YRI][hapmap];0.88[AFR][1000 genomes]
rs11013357	0.86[AFR][1000 genomes]
rs11013364	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs11013377	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11013378	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11013386	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11013397	0.85[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap]
rs11813971	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12217944	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12569400	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12571348	0.97[EUR][1000 genomes]
rs3891382	0.91[JPT][hapmap]
rs4297364	0.87[YRI][hapmap]
rs4587637	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4747460	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4747461	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4748853	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4748858	0.97[ASN][1000 genomes]
rs4748860	0.91[JPT][hapmap];0.97[ASN][1000 genomes]
rs4748861	1.00[CEU][hapmap];0.84[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72648296	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7904429	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7904551	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831810	chr10:23445647-23605270	Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv466834	chr10:23482635-23623523	Weak transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv550213	chr10:23482635-23623523	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11013369	BMI1	cis	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:23580600-23590800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:23581800-23583600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr10:23582200-23583400	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr10:23582200-23583400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr10:23582400-23583200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr10:23582400-23583400	Enhancers	Fetal Brain Female	brain
7	chr10:23582800-23583200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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