Variant report

Variant	rs1376307
Chromosome Location	chr4:62688669-62688670
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10000772	0.89[EUR][1000 genomes]
rs10006513	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10015258	0.95[CEU][hapmap];0.93[GIH][hapmap];0.93[TSI][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10017044	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10021525	0.84[JPT][hapmap]
rs10021694	0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs1031341	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11734607	0.85[GIH][hapmap]
rs12509742	1.00[CEU][hapmap];0.93[GIH][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes]
rs12641643	0.81[ASN][1000 genomes]
rs12646895	0.81[ASW][hapmap]
rs12651006	0.81[ASN][1000 genomes]
rs13122879	0.82[AMR][1000 genomes]
rs1376306	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1450901	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1470721	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17090543	0.87[GIH][hapmap]
rs1817052	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs1901223	0.96[CEU][hapmap];0.95[GIH][hapmap];0.90[TSI][hapmap];0.92[EUR][1000 genomes]
rs2122640	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2122643	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2167280	0.94[EUR][1000 genomes]
rs2345043	1.00[CEU][hapmap];0.95[GIH][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2345044	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2345045	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2345046	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2345047	1.00[CEU][hapmap];0.95[GIH][hapmap];0.91[MEX][hapmap];0.88[TSI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2345048	0.83[AMR][1000 genomes]
rs2345049	0.85[CEU][hapmap];0.89[GIH][hapmap];0.83[MEX][hapmap];0.80[AMR][1000 genomes]
rs28735546	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28861113	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4487384	0.93[EUR][1000 genomes]
rs4493573	1.00[CEU][hapmap];0.83[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4860104	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4860434	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs4860435	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4860436	0.87[ASN][1000 genomes]
rs6551659	0.96[ASN][1000 genomes]
rs6551660	0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs6818785	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6855424	0.93[EUR][1000 genomes]
rs7656882	0.81[ASW][hapmap];1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7665141	0.88[ASN][1000 genomes]
rs7695134	0.82[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs969965	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9942184	0.89[GIH][hapmap]
rs9990553	0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461377	chr4:62368762-62883431	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv594328	chr4:62368762-62883431	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv829949	chr4:62615637-62761629	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv428760	chr4:62649399-62824542	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62681200-62693000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr4:62682600-62697600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr4:62683400-62689400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr4:62683400-62697400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr4:62686600-62693200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr4:62686800-62691000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr4:62686800-62693000	Weak transcription	HUES48 Cell Line	embryonic stem cell

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