Variant report

Variant	rs9419560
Chromosome Location	chr10:152201-152202
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	chr10:149727..154079-chr10:158587..160825,3	MCF-7	breast:
2	chr10:150747..152265-chr11:118441730..118443505,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000095139	Chromatin interaction
ENSG00000118096	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1017361	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap]
rs11251906	0.83[EUR][1000 genomes]
rs11253286	0.96[EUR][1000 genomes]
rs12218882	0.83[EUR][1000 genomes]
rs1367896	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1476129	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1545003	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2043201	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2303990	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs2379069	1.00[EUR][1000 genomes]
rs2436024	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2436025	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap]
rs2436028	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2436031	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2448365	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2448369	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2448374	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2448376	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2448377	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs2448379	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2448382	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2496274	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs2496277	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2496279	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3123252	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap]
rs3132006	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap]
rs3740303	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs4390277	0.84[ASN][1000 genomes]
rs4469806	0.84[ASN][1000 genomes]
rs4469807	0.84[ASN][1000 genomes]
rs4504990	0.84[ASN][1000 genomes]
rs4537685	0.84[ASN][1000 genomes]
rs4600135	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap]
rs6560723	0.84[ASN][1000 genomes]
rs7081782	0.84[ASN][1000 genomes]
rs72651781	0.82[EUR][1000 genomes]
rs7905732	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7910845	0.84[ASN][1000 genomes]
rs7918734	0.84[ASN][1000 genomes]
rs9286070	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9329277	0.84[ASN][1000 genomes]
rs9329281	0.84[ASN][1000 genomes]
rs9419433	0.84[ASN][1000 genomes]
rs9419473	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9419475	1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9419539	0.85[EUR][1000 genomes]
rs9419556	1.00[EUR][1000 genomes]
rs9419557	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9419561	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9419562	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9419564	1.00[EUR][1000 genomes];1.00[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	nsv531919	chr10:60001-668649	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1040332	chr10:72797-244561	Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1044775	chr10:72797-250662	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1047868	chr10:72797-259003	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1048232	chr10:72797-274675	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:151200-152800	Enhancers	Stomach Mucosa	stomach
2	chr10:151600-161600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:152000-154000	Enhancers	Fetal Lung	lung

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