Variant report

Variant	rs55739909
Chromosome Location	chr4:28684331-28684332
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:28683044..28685145-chr4:28691951..28693893,2	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10939222	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11937307	0.84[ASN][1000 genomes]
rs11943453	0.87[ASN][1000 genomes]
rs11944357	0.85[ASN][1000 genomes]
rs12331108	0.87[ASN][1000 genomes]
rs12648749	0.93[ASN][1000 genomes]
rs16880924	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs17643347	0.81[ASN][1000 genomes]
rs17699721	0.81[ASN][1000 genomes]
rs17702089	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4692333	0.87[ASN][1000 genomes]
rs57767930	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58438669	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67683753	0.81[ASN][1000 genomes]
rs6811230	0.90[ASN][1000 genomes]
rs6830893	0.90[ASN][1000 genomes]
rs73215429	0.84[ASN][1000 genomes]
rs73215462	0.94[ASN][1000 genomes]
rs7657422	0.87[ASN][1000 genomes]
rs7662061	0.87[ASN][1000 genomes]
rs9990643	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757926	chr4:28543958-28839437	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
2	esv2759239	chr4:28543958-28839437	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
3	nsv829894	chr4:28587323-28740840	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv1848641	chr4:28588964-28760835	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv878782	chr4:28624265-28706757	Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv34764	chr4:28632207-28722831	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	esv2757050	chr4:28632207-28769118	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv433218	chr4:28641062-28732481	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv441865	chr4:28642333-28730824	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	esv34271	chr4:28642726-28754977	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv878783	chr4:28680520-28843029	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
12	nsv878784	chr4:28680520-29069894	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:28681600-28684400	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr4:28681600-28684400	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr4:28682200-28684400	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr4:28682200-28685400	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr4:28682800-28684800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr4:28682800-28685200	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr4:28683200-28684400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr4:28683200-28685000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr4:28684000-28684800	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr4:28684200-28684600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
11	chr4:28684200-28684600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
12	chr4:28684200-28684800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr4:28684200-28685000	Weak transcription	H1 Cell Line	embryonic stem cell

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