Variant report

Variant	rs1497901
Chromosome Location	chr4:62461940-62461941
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10003982	0.82[EUR][1000 genomes]
rs10031433	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10032879	1.00[YRI][hapmap]
rs1018095	1.00[YRI][hapmap]
rs10866124	0.86[ASW][hapmap];0.89[CEU][hapmap];0.91[TSI][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11131329	0.89[CEU][hapmap];0.87[TSI][hapmap];0.86[EUR][1000 genomes]
rs11131334	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11735278	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11939481	0.88[CEU][hapmap]
rs12504607	0.89[CEU][hapmap]
rs12715704	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13123468	0.89[CEU][hapmap]
rs13123888	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1391321	1.00[ASW][hapmap];0.89[CEU][hapmap];0.86[MEX][hapmap];0.93[TSI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1472425	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1497906	0.85[CEU][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1497907	1.00[ASW][hapmap];0.89[CEU][hapmap];0.81[MEX][hapmap];0.89[TSI][hapmap]
rs1497909	0.85[CEU][hapmap]
rs1497916	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1497921	0.89[CEU][hapmap]
rs1603660	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17239080	0.86[ASW][hapmap];1.00[CEU][hapmap];0.86[MEX][hapmap];0.96[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1846160	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2343250	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4860417	0.85[EUR][1000 genomes]
rs4860418	0.85[EUR][1000 genomes]
rs6551634	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6551637	0.89[CEU][hapmap]
rs6551640	0.89[CEU][hapmap]
rs67669396	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6813075	0.82[EUR][1000 genomes]
rs6817476	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6835374	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.86[MEX][hapmap];0.96[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6843311	0.85[CEU][hapmap]
rs6851424	0.89[CEU][hapmap]
rs7656051	0.88[CEU][hapmap]
rs7662888	1.00[YRI][hapmap]
rs7669283	0.92[CEU][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap]
rs958862	1.00[ASW][hapmap];0.89[CEU][hapmap];0.86[MEX][hapmap];0.93[TSI][hapmap]
rs9685140	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9992538	1.00[YRI][hapmap]

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	nsv868844	chr4:62241702-62497248	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	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
3	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
4	nsv1004815	chr4:62398737-62553769	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv537110	chr4:62398737-62553769	ZNF genes & repeats Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv594329	chr4:62416593-62478230	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv879077	chr4:62419426-62545435	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62446400-62462200	Weak transcription	Fetal Muscle Leg	muscle
2	chr4:62451200-62465000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr4:62460400-62473400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr4:62461200-62478000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr4:62461400-62462000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr4:62461600-62473600	Weak transcription	Fetal Stomach	stomach

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