Variant report

Variant	rs209177
Chromosome Location	chr6:28803103-28803104
allele	C/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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28800000..28803653-chr6:28805218..28808820,5	K562	blood:
2	chr6:28733597..28735281-chr6:28802392..28805024,2	K562	blood:
3	chr6:28802089..28805031-chr6:28809427..28811386,2	K562	blood:
4	chr6:28715456..28717340-chr6:28801713..28804501,2	K562	blood:
5	chr6:28795106..28798170-chr6:28801173..28804341,4	K562	blood:
6	chr15:40734249..40736119-chr6:28802830..28804653,2	K562	blood:
7	chr6:28802885..28808466-chr6:28831550..28836351,8	MCF-7	breast:
8	chr6:28802724..28808694-chr6:28856997..28865691,21	K562	blood:
9	chr6:28802648..28804647-chr6:28992875..28994598,2	K562	blood:
10	chr6:28801618..28804388-chr6:28983054..28984845,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000225595	Chromatin interaction
ENSG00000233366	Chromatin interaction
ENSG00000224157	Chromatin interaction
ENSG00000225173	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10484543	0.82[AMR][1000 genomes]
rs1061625	0.85[ASN][1000 genomes]
rs172326	0.95[ASN][1000 genomes]
rs1794588	0.85[ASN][1000 genomes]
rs184094	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2013652	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs209127	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs209140	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs209147	0.94[ASN][1000 genomes]
rs209151	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs209165	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs209172	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs209180	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2097424	0.85[ASN][1000 genomes]
rs2148007	0.88[ASN][1000 genomes]
rs2269553	0.84[ASN][1000 genomes]
rs28381661	0.85[ASN][1000 genomes]
rs28381663	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs28400868	0.82[AMR][1000 genomes]
rs28400869	0.82[AMR][1000 genomes]
rs28743260	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2894066	0.85[ASN][1000 genomes]
rs3132377	0.85[ASN][1000 genomes]
rs3132380	0.81[ASN][1000 genomes]
rs3135314	0.88[ASN][1000 genomes]
rs413972	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs422331	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs429369	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4484511	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6909419	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs743847	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7750338	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7763940	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7769221	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7776376	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9257269	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9257270	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9257274	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9257280	0.90[ASN][1000 genomes]
rs9257281	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9257328	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs929042	0.84[ASN][1000 genomes]
rs9348814	0.82[AMR][1000 genomes]
rs9368576	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9378149	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9393932	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9393933	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9404976	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534089	chr6:28636972-28841640	Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv883518	chr6:28792477-28911802	Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases
3	nsv883519	chr6:28792477-28936556	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28802200-28805000	Weak transcription	K562	blood
2	chr6:28802400-28805200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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