Variant report

Variant	rs56110474
Chromosome Location	chr6:28772441-28772442
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28770520..28773672-chr6:28829844..28832870,3	K562	blood:
2	chr6:28771451..28773263-chr6:28777101..28779175,2	K562	blood:
3	chr6:28770558..28773254-chr6:28806737..28808772,2	K562	blood:
4	chr6:28760359..28764219-chr6:28771578..28776179,5	K562	blood:
5	chr6:28771461..28773672-chr6:28829844..28832711,2	K562	blood:

Variant related genes	Relation type
ENSG00000225173	Chromatin interaction
ENSG00000225595	Chromatin interaction
ENSG00000265764	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10498733	0.93[AMR][1000 genomes]
rs12386522	0.92[EUR][1000 genomes]
rs169682	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs17280797	0.82[AMR][1000 genomes]
rs17280818	0.82[AMR][1000 genomes]
rs17281186	0.82[AMR][1000 genomes]
rs17346574	0.82[AMR][1000 genomes]
rs17375288	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs185982	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs1936180	0.93[AMR][1000 genomes]
rs209189	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs209190	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs209192	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs209193	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs209199	0.92[AFR][1000 genomes]
rs2754761	0.87[AMR][1000 genomes]
rs2754762	0.87[AMR][1000 genomes]
rs2754763	1.00[EUR][1000 genomes]
rs2754765	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2765222	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2765223	0.87[AMR][1000 genomes]
rs398795	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs41270616	0.92[EUR][1000 genomes]
rs453020	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55891766	0.82[AMR][1000 genomes]
rs55908628	0.85[EUR][1000 genomes]
rs56271755	1.00[EUR][1000 genomes]
rs56308612	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs56374518	0.87[AMR][1000 genomes]
rs56678427	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs57491524	0.89[AFR][1000 genomes]
rs58104924	0.93[AMR][1000 genomes]
rs59959723	0.82[AMR][1000 genomes]
rs61094745	0.82[AMR][1000 genomes]
rs7739915	1.00[ASN][1000 genomes]
rs7755641	0.93[AMR][1000 genomes]
rs7760656	0.82[AMR][1000 genomes]
rs7765829	0.82[AMR][1000 genomes]
rs7766599	0.82[AMR][1000 genomes]
rs9468439	0.92[EUR][1000 genomes]
rs9468440	0.92[EUR][1000 genomes]
rs9468445	1.00[EUR][1000 genomes]
rs9468447	0.92[EUR][1000 genomes]
rs9468450	0.89[EUR][1000 genomes]
rs9468451	0.92[EUR][1000 genomes]
rs9500892	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 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	nsv883517	chr6:28751727-28802149	Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv3384463	chr6:28759027-28776259	Bivalent Enhancer Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv2621756	chr6:28762692-28779791	Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv2322180	chr6:28764675-28780578	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	esv9558	chr6:28770281-28785058	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	esv3410540	chr6:28770455-28785112	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	esv3322630	chr6:28770519-28785092	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription	Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	esv3486939	chr6:28770525-28785051	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	esv3486940	chr6:28770525-28785051	Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
11	esv3403106	chr6:28770790-28785189	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28771400-28775800	Weak transcription	GM12878-XiMat	blood
2	chr6:28771800-28775600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:28772200-28775600	Weak transcription	Hela-S3	cervix
4	chr6:28772400-28772800	Enhancers	A549	lung
5	chr6:28772400-28775600	Weak transcription	K562	blood

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