Variant report

Variant	rs4884928
Chromosome Location	chr13:54813190-54813191
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs12427903	0.87[EUR][1000 genomes]
rs12429828	0.87[EUR][1000 genomes]
rs12429973	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12430260	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1577577	0.84[EUR][1000 genomes]
rs17604306	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17667588	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17667614	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1855847	0.84[EUR][1000 genomes]
rs1889824	0.84[EUR][1000 genomes]
rs1960782	0.84[EUR][1000 genomes]
rs1984140	0.84[EUR][1000 genomes]
rs1984141	0.84[EUR][1000 genomes]
rs2050378	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2065822	0.84[EUR][1000 genomes]
rs2152084	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2576122	0.84[EUR][1000 genomes]
rs2576124	0.84[EUR][1000 genomes]
rs2576125	0.84[EUR][1000 genomes]
rs2576126	0.84[EUR][1000 genomes]
rs2576127	0.84[EUR][1000 genomes]
rs2576128	0.82[EUR][1000 genomes]
rs2576129	0.84[EUR][1000 genomes]
rs2576131	0.84[EUR][1000 genomes]
rs2576136	0.84[EUR][1000 genomes]
rs2576147	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs2782502	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2784559	0.81[EUR][1000 genomes]
rs2784560	0.84[EUR][1000 genomes]
rs2784561	0.84[EUR][1000 genomes]
rs2784562	0.84[EUR][1000 genomes]
rs2784564	0.84[EUR][1000 genomes]
rs2784566	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2784567	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs2784568	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2784572	0.84[EUR][1000 genomes]
rs2818222	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2818223	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2818224	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4883886	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4883887	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs57804893	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs682930	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs684299	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs795647	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs795649	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs878942	0.84[EUR][1000 genomes]
rs933101	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs988527	0.84[EUR][1000 genomes]
rs988528	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3375545	chr13:54517432-54908108	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv561701	chr13:54711276-54826104	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1051063	chr13:54777487-54997866	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv541778	chr13:54777487-54997866	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1046376	chr13:54785036-54827801	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	esv2763024	chr13:54786785-54822165	Enhancers Genic enhancers Weak transcription Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	esv3693144	chr13:54788842-54816326	Enhancers Strong transcription ZNF genes & repeats Weak transcription Genic enhancers	lncRNA	n/a	inside rSNPs	n/a
8	nsv471132	chr13:54788842-54885744	ZNF genes & repeats Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:54801400-54821800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr13:54803200-54815400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr13:54807200-54821200	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr13:54807600-54815800	Weak transcription	HUES48 Cell Line	embryonic stem cell

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