Variant report

Variant	rs17082301
Chromosome Location	chr4:53893156-53893157
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:53888855..53891159-chr4:53891237..53893282,2	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10013152	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10024057	1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[ASN][1000 genomes]
rs10033650	0.85[AMR][1000 genomes]
rs10517278	0.83[GIH][hapmap];0.82[MEX][hapmap]
rs11941906	1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[ASN][1000 genomes]
rs13340297	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs1384696	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17082330	1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.80[YRI][hapmap];0.91[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2062185	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[YRI][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2062186	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28404612	0.81[ASN][1000 genomes]
rs28507473	0.97[ASN][1000 genomes]
rs28592856	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28652757	0.93[ASN][1000 genomes]
rs28688668	0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28713187	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28882784	0.85[AMR][1000 genomes]
rs3912335	1.00[ASN][1000 genomes]
rs4419529	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4864712	1.00[CHB][hapmap];0.94[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[ASN][1000 genomes]
rs4864713	1.00[ASN][1000 genomes]
rs4864714	1.00[ASN][1000 genomes]
rs4864715	1.00[CHB][hapmap];0.94[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[ASN][1000 genomes]
rs4864717	0.81[GIH][hapmap]
rs56259272	0.85[AMR][1000 genomes]
rs6554065	1.00[CEU][hapmap];0.90[CHB][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs6822707	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6825075	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6855010	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7658716	1.00[CHB][hapmap];0.88[CHD][hapmap];0.83[GIH][hapmap];0.91[MEX][hapmap];0.97[ASN][1000 genomes]
rs7671836	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7673017	1.00[ASN][1000 genomes]
rs7694940	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7698034	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9312635	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9790561	1.00[CEU][hapmap];0.90[CHB][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap]
rs9999433	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[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	nsv1004889	chr4:53436500-54106281	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv537094	chr4:53436500-54106281	Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv508280	chr4:53825060-53907661	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:53883200-53896400	Weak transcription	Primary B cells from cord blood	blood
2	chr4:53889000-53894800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr4:53889600-53895000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr4:53890200-53894800	Weak transcription	Aorta	Aorta
5	chr4:53891600-53893600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr4:53892000-53894600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr4:53892400-53893200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr4:53892800-53893600	Strong transcription	Primary T cells from cord blood	blood
9	chr4:53893000-53893600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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