Variant report

Variant	rs10887827
Chromosome Location	chr10:90250920-90250921
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:90249239..90251953-chr13:73810044..73812840,2	MCF-7	breast:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10509544	0.85[AMR][1000 genomes]
rs10736353	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10736355	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10788601	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10788604	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10788605	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10887829	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1177587	0.97[ASN][1000 genomes]
rs1183901	0.97[ASN][1000 genomes]
rs12266064	0.87[AMR][1000 genomes]
rs12778446	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1325903	0.81[AFR][1000 genomes]
rs1325907	1.00[ASN][1000 genomes]
rs1359580	0.83[AFR][1000 genomes]
rs1409134	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1952122	0.84[AFR][1000 genomes]
rs2077890	1.00[ASN][1000 genomes]
rs2153856	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2437872	1.00[ASN][1000 genomes]
rs2437874	0.87[ASN][1000 genomes]
rs2437877	0.98[ASN][1000 genomes]
rs2437878	0.96[ASN][1000 genomes]
rs2477955	0.96[ASN][1000 genomes]
rs2477957	0.97[ASN][1000 genomes]
rs2488271	0.96[ASN][1000 genomes]
rs2576174	1.00[ASN][1000 genomes]
rs2576180	0.97[ASN][1000 genomes]
rs2765442	0.87[ASN][1000 genomes]
rs2765444	1.00[ASN][1000 genomes]
rs2986118	0.86[ASN][1000 genomes]
rs6586130	0.83[AMR][1000 genomes]
rs7075544	0.84[AFR][1000 genomes]
rs7077182	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7096710	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs725683	1.00[ASN][1000 genomes]
rs725684	1.00[ASN][1000 genomes]
rs745354	0.82[AFR][1000 genomes]
rs7895199	0.83[AMR][1000 genomes]
rs7902230	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7907866	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7913372	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7919420	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7922053	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv1050587	chr10:90146582-90272627	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv540739	chr10:90146582-90272627	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
7	nsv825500	chr10:90221443-90302503	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv533167	chr10:90236197-90341481	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90248800-90251400	Enhancers	Primary T cells from cord blood	blood
2	chr10:90249000-90251000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr10:90249200-90251400	Enhancers	Dnd41	blood
4	chr10:90249200-90251800	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr10:90249200-90252600	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr10:90249400-90253400	Weak transcription	Colon Smooth Muscle	Colon
7	chr10:90249600-90251200	Enhancers	Liver	Liver
8	chr10:90249600-90253400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr10:90249800-90251800	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr10:90249800-90252000	Enhancers	Primary hematopoietic stem cells	blood
11	chr10:90250200-90251600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr10:90250200-90252000	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr10:90250200-90252000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr10:90250200-90253200	Weak transcription	Fetal Lung	lung
15	chr10:90250800-90251000	Enhancers	Right Atrium	heart
16	chr10:90250800-90251200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
17	chr10:90250800-90251200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr10:90250800-90251200	Enhancers	Duodenum Smooth Muscle	Duodenum
19	chr10:90250800-90251200	Enhancers	Fetal Thymus	thymus

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