Variant report

Variant	rs28728101
Chromosome Location	chr5:89734969-89734970
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:89733350..89737500-chr5:89766569..89771805,6	K562	blood:
2	chr5:89703797..89708066-chr5:89728006..89736494,11	K562	blood:
3	chr5:89734834..89736191-chr5:89825533..89826967,10	K562	blood:
4	chr5:89705337..89707111-chr5:89733531..89736471,3	MCF-7	breast:
5	chr5:89726660..89728895-chr5:89732787..89735432,2	K562	blood:
6	chr5:89733791..89736878-chr5:89769753..89772631,3	K562	blood:
7	chr5:89728568..89730738-chr5:89734228..89736500,2	MCF-7	breast:
8	chr5:89734461..89736574-chr5:89825352..89826785,9	MCF-7	breast:
9	chr5:89704076..89709976-chr5:89733550..89739428,10	K562	blood:
10	chr5:89734494..89736835-chr5:89765203..89768069,2	K562	blood:
11	chr5:89705021..89707412-chr5:89731283..89735254,4	MCF-7	breast:
12	chr5:89734117..89735984-chr5:89824400..89826763,2	K562	blood:
13	chr17:17184281..17187158-chr5:89732656..89734988,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000176055	Chromatin interaction
ENSG00000113356	Chromatin interaction
ENSG00000141030	Chromatin interaction
ENSG00000176018	Chromatin interaction
ENSG00000164199	Chromatin interaction
ENSG00000153140	Chromatin interaction
ENSG00000255647	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10041220	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10043702	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10214167	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10473934	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10942593	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10942594	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11953207	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11956418	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12516555	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13436287	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2303801	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28815472	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34397682	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3763070	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3763072	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3805478	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs59742368	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61610742	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6864062	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6867534	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6872360	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6889253	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6889947	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6890115	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7729481	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7730433	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7732363	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9293541	0.89[AFR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021142	chr5:89102893-89897826	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv537804	chr5:89102893-89897826	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv917025	chr5:89208994-89855436	Enhancers Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
4	nsv432750	chr5:89410113-90137144	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv432751	chr5:89457044-90090444	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
6	nsv529544	chr5:89523963-90412409	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:89732400-89735400	Weak transcription	GM12878-XiMat	blood
2	chr5:89734600-89735600	Weak transcription	Hela-S3	cervix
3	chr5:89734600-89769000	Weak transcription	Pancreas	Pancrea
4	chr5:89734800-89735200	Weak transcription	Liver	Liver
5	chr5:89734800-89735400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr5:89734800-89735400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr5:89734800-89735800	Weak transcription	Fetal Heart	heart

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