Variant report

Variant	rs4556577
Chromosome Location	chr11:5334951-5334952
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	11:5243048-5250847..11:5333905-5335774	Hela-S3	cervix:
2	11:5333905-5335774..11:5616559-5618985	H1-hESC	embryonic stem cell:	embryo
3	11:5333905-5335774..11:5469844-5475173	H1-hESC	embryonic stem cell:	embryo
4	11:5250847-5268367..11:5333905-5335774	Hela-S3	cervix:
5	11:5333905-5335774..11:5714465-5718134	Hela-S3	cervix:
6	11:4900708-4903421..11:5333905-5335774	Hela-S3	cervix:
7	11:5018576-5020673..11:5333905-5335774	H1-hESC	embryonic stem cell:	embryo
8	11:5333905-5335774..11:5407716-5412355	H1-hESC	embryonic stem cell:	embryo

Variant related genes	Relation type
ENSG00000121236	Chromatin interaction
ENSG00000229988	Chromatin interaction
ENSG00000223609	Chromatin interaction
ENSG00000187918	Chromatin interaction
ENSG00000260629	Chromatin interaction
ENSG00000221031	Chromatin interaction
ENSG00000184698	Chromatin interaction
ENSG00000132274	Chromatin interaction
ENSG00000244734	Chromatin interaction
ENSG00000258588	Chromatin interaction
ENSG00000176900	Chromatin interaction
ENSG00000176798	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10082660	0.84[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs10742617	0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs10742622	0.87[ASN][1000 genomes]
rs10768786	0.84[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs10768793	0.87[ASN][1000 genomes]
rs10837783	0.97[ASN][1000 genomes]
rs10837784	0.97[ASN][1000 genomes]
rs10837791	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10837794	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11036723	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11036727	0.84[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs11036729	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11036730	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11036739	0.82[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs11036762	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11036763	0.82[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs11036764	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11036783	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12293101	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12361239	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12365420	0.97[ASN][1000 genomes]
rs3886220	0.87[ASN][1000 genomes]
rs3902049	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs4433594	0.87[ASN][1000 genomes]
rs4910550	0.86[ASN][1000 genomes]
rs4910745	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4910746	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4910750	0.86[ASN][1000 genomes]
rs61894568	0.91[ASN][1000 genomes]
rs6578604	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6578606	0.86[ASN][1000 genomes]
rs7106071	0.87[ASN][1000 genomes]
rs7106718	0.87[ASN][1000 genomes]
rs7482918	0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7483109	0.84[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7483899	0.97[ASN][1000 genomes]
rs7926089	0.84[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7926855	0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7930548	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7933257	0.87[ASN][1000 genomes]
rs7934005	0.87[ASN][1000 genomes]
rs7937237	0.87[ASN][1000 genomes]
rs7941323	0.84[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7945616	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7945886	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7948238	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7948348	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7951549	0.87[ASN][1000 genomes]
rs7952293	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042613	chr11:5173410-5336839	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	nsv1052750	chr11:5187571-5338802	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
3	nsv1048355	chr11:5192334-5336839	Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
4	nsv1037760	chr11:5228195-5338802	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
5	nsv1054068	chr11:5228264-5336839	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
6	nsv524400	chr11:5328361-5416622	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
7	nsv1048608	chr11:5328516-5645179	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	60 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:5330400-5345000	Weak transcription	K562	blood

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