Variant report

Variant	rs6049417
Chromosome Location	chr20:24102622-24102623
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1006194	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs127801	0.82[CHB][hapmap]
rs2005624	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2013710	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2208012	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2224232	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs224151	0.81[CHB][hapmap]
rs6036640	0.91[EUR][1000 genomes]
rs6036644	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6036645	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6036650	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6036653	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6036654	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6036664	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6049389	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6049390	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6049392	0.91[EUR][1000 genomes]
rs6049394	0.93[EUR][1000 genomes]
rs6049403	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6049416	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6049419	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6049432	0.80[CEU][hapmap];0.81[CHB][hapmap]
rs6114487	0.81[EUR][1000 genomes]
rs6114488	0.81[EUR][1000 genomes]
rs6114489	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs721314	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs761865	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs761868	0.81[CEU][hapmap];0.81[CHB][hapmap]
rs761869	0.81[CEU][hapmap];0.82[CHB][hapmap]
rs858140	0.85[EUR][1000 genomes]
rs858141	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs858144	0.90[EUR][1000 genomes]
rs858145	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs910775	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs974784	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs974785	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[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	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
3	esv3328348	chr20:24095746-24285830	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24099800-24103400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr20:24100600-24104000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr20:24100800-24103000	Weak transcription	HUVEC	blood vessel
4	chr20:24101000-24103800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr20:24102400-24103200	Enhancers	Placenta Amnion	Placenta Amnion
6	chr20:24102400-24103400	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr20:24102400-24103400	Enhancers	Monocytes-CD14+_RO01746	blood
8	chr20:24102600-24102800	Enhancers	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links