Variant report

Variant	rs4906577
Chromosome Location	chr14:37567286-37567287
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FOXA1-3	chr14:37567056-37567768	ENSG00000258827.1
2	lnc-FOXA1-3	chr14:37567062-37567768	ENSG00000258827.2

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10130026	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10134334	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10139302	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10140952	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10148606	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs10483487	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10483488	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12100470	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12101262	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12588348	0.85[AMR][1000 genomes]
rs17106324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17106327	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17106328	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17106343	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17106347	1.00[CEU][hapmap]
rs17106358	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17106368	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17106374	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17106381	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17106401	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17106410	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17106412	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17106437	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17106466	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17106483	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17106486	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17106510	1.00[CEU][hapmap]
rs1955757	1.00[CEU][hapmap]
rs1955759	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2180094	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2415387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4900688	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4906569	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4906593	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs55855906	0.92[ASN][1000 genomes]
rs56905022	0.83[AMR][1000 genomes]
rs56933807	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57011324	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57235476	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57843803	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58262791	0.83[AMR][1000 genomes]
rs58398434	0.95[ASN][1000 genomes]
rs58473518	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59508104	0.83[AMR][1000 genomes]
rs60439332	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60853724	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60921013	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs66496057	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66862591	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs67441823	0.95[ASN][1000 genomes]
rs7140725	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7143172	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7143753	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7145914	1.00[CEU][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes]
rs7149379	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7151756	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72669535	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs72669537	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72669543	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72669551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72669558	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72669566	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72669579	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72669586	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72669588	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72669600	0.84[EUR][1000 genomes]
rs72669602	0.81[AMR][1000 genomes]
rs8005504	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8007988	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8008529	0.83[AMR][1000 genomes]
rs8015791	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9888585	1.00[CEU][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	nsv534288	chr14:37254539-37697745	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1050174	chr14:37556357-37664143	Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1043410	chr14:37556357-37671059	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv564347	chr14:37558794-37590164	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:37561400-37568000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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