Variant report

Variant	rs2005624
Chromosome Location	chr20:24072834-24072835
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GGTLC1-2	chr20:24071567-24075650	XLOC_013697

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1006194	0.81[EUR][1000 genomes]
rs2013710	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2208012	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6036640	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6036644	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6036645	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6036650	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6036653	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6036654	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6036664	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6049389	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6049390	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6049392	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6049394	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6049403	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6049416	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6049417	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6049419	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs721314	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs761865	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs858140	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs858141	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs858144	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs858145	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs910775	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs974784	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs974785	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1056491	chr20:23955040-24105080	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24070200-24076000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr20:24070800-24075800	Weak transcription	Fetal Kidney	kidney
3	chr20:24072200-24075200	Weak transcription	Pancreas	Pancrea
4	chr20:24072600-24075200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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