Variant report

Variant	rs28378260
Chromosome Location	chr15:72416212-72416213
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:72414952..72417326-chr15:72421781..72424529,2	K562	blood:
2	chr15:72407623..72411234-chr15:72416192..72418489,3	K562	blood:
3	chr15:72415429..72417682-chr15:72447288..72450280,2	MCF-7	breast:
4	chr15:72408676..72411234-chr15:72416192..72418083,2	K562	blood:

Variant related genes	Relation type
ENSG00000260173	Chromatin interaction
ENSG00000066933	Chromatin interaction
ENSG00000166192	Chromatin interaction

Extended variants
information (count: 108 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs13329116	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13329270	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13329340	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2306487	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs2415131	1.00[CEU][hapmap]
rs28367264	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28373432	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28379334	1.00[AMR][1000 genomes]
rs28393460	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28396234	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28397237	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28397783	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28402155	1.00[ASW][hapmap]
rs28403882	1.00[AMR][1000 genomes]
rs28408067	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28409864	1.00[AMR][1000 genomes]
rs28413902	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28428645	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28429589	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28430988	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28445807	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28448787	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28450008	1.00[AMR][1000 genomes]
rs28450424	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28451732	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28455090	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28456991	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28470660	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28482979	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28483934	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28485920	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28501562	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28504509	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28507982	0.81[AFR][1000 genomes]
rs28514321	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28529658	1.00[AMR][1000 genomes]
rs28536592	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28542557	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28543029	1.00[AMR][1000 genomes]
rs28547979	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28548453	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28552371	1.00[ASW][hapmap];1.00[MEX][hapmap];1.00[AMR][1000 genomes]
rs28553452	1.00[ASW][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28569017	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28570214	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28573725	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28583168	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28589979	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28599944	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28605814	1.00[AMR][1000 genomes]
rs28625307	0.82[AFR][1000 genomes]
rs28628140	1.00[AMR][1000 genomes]
rs28628792	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28634283	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28636054	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28639590	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28642081	1.00[AMR][1000 genomes]
rs28643436	1.00[AMR][1000 genomes]
rs28643497	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28654176	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28654851	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28654861	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28657431	1.00[AMR][1000 genomes]
rs28658414	1.00[AMR][1000 genomes]
rs28660217	1.00[ASW][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28660581	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28662800	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28663692	1.00[ASW][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28667521	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28670261	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28675378	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28681225	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28701136	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28707151	1.00[ASW][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28707565	1.00[AMR][1000 genomes]
rs28709937	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28715777	1.00[AMR][1000 genomes]
rs28725348	1.00[AMR][1000 genomes]
rs28727443	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28741048	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28778881	0.82[AFR][1000 genomes]
rs28786091	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28791192	1.00[AMR][1000 genomes]
rs28801155	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28808678	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28809863	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28817677	0.82[AFR][1000 genomes]
rs28824293	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28830268	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28833566	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28853032	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28872877	1.00[AMR][1000 genomes]
rs28879707	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8192372	1.00[AMR][1000 genomes]
rs9888653	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920204	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920223	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920476	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920987	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920991	1.00[ASW][hapmap]

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	esv3331306	chr15:72049818-72427559	Strong transcription ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	esv3433206	chr15:72049838-72427529	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1042740	chr15:72128799-72482239	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv542426	chr15:72128799-72482239	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv431395	chr15:72266174-72701777	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
6	nsv833051	chr15:72315471-72508429	Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
7	nsv530817	chr15:72350885-72773374	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases
8	esv3430860	chr15:72373723-72849907	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72411400-72432000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr15:72411600-72428000	Weak transcription	Left Ventricle	heart
3	chr15:72411600-72433800	Weak transcription	Fetal Intestine Small	intestine
4	chr15:72411800-72416600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr15:72411800-72421000	Weak transcription	Fetal Kidney	kidney
6	chr15:72412200-72431800	Weak transcription	Psoas Muscle	Psoas

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