Variant report

Variant	rs28821492
Chromosome Location	chr4:105835303-105835304
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:105825267..105827143-chr4:105834814..105836639,2	MCF-7	breast:
2	chr4:105835133..105839017-chr4:105845733..105848373,3	MCF-7	breast:
3	chr4:105831485..105836065-chr4:106065416..106068855,4	MCF-7	breast:
4	chr4:105832461..105835900-chr4:105886458..105889484,3	MCF-7	breast:
5	chr4:105819730..105822198-chr4:105833841..105836097,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168769	Chromatin interaction
ENSG00000248242	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10005603	1.00[ASN][1000 genomes]
rs10008364	1.00[ASN][1000 genomes]
rs10016801	0.82[AFR][1000 genomes]
rs10018423	1.00[EUR][1000 genomes]
rs10023520	1.00[ASN][1000 genomes]
rs10031416	1.00[EUR][1000 genomes]
rs10034768	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11097872	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12331635	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12710977	1.00[ASN][1000 genomes]
rs13435073	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13435195	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17035094	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17035104	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035107	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17239412	1.00[ASN][1000 genomes]
rs1994634	0.82[AFR][1000 genomes]
rs2046879	1.00[ASN][1000 genomes]
rs28375724	0.82[AFR][1000 genomes]
rs28413517	1.00[EUR][1000 genomes]
rs28430435	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28462029	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28521501	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28583917	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28611049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28631735	1.00[ASN][1000 genomes]
rs28647898	1.00[EUR][1000 genomes]
rs2866762	1.00[ASN][1000 genomes]
rs28670737	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28704480	1.00[EUR][1000 genomes]
rs28756097	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3943090	0.82[AFR][1000 genomes]
rs4698927	0.82[AFR][1000 genomes]
rs58308342	0.82[AFR][1000 genomes]
rs61460258	1.00[EUR][1000 genomes]
rs62329755	0.84[AFR][1000 genomes]
rs62331061	0.82[AFR][1000 genomes]
rs72963277	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72963284	1.00[EUR][1000 genomes]
rs72963285	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7654991	1.00[ASN][1000 genomes]
rs7660636	0.82[AFR][1000 genomes]
rs7690950	0.82[AFR][1000 genomes]
rs7691125	0.82[AFR][1000 genomes]
rs7695587	1.00[ASN][1000 genomes]
rs9993343	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3341748	chr4:105569622-105903733	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	esv3388659	chr4:105613526-105882646	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 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	chr4:105828400-105840000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr4:105833600-105836800	Weak transcription	Liver	Liver
3	chr4:105834600-105835600	Weak transcription	Fetal Brain Male	brain

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