Variant report

Variant	rs57522359
Chromosome Location	chr3:52814269-52814270
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:52812843..52815732-chr3:52828403..52831078,2	K562	blood:
2	chr3:52810201..52813170-chr3:52814062..52816264,2	K562	blood:

Variant related genes	Relation type
ENSG00000162267	Chromatin interaction
ENSG00000055957	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1344932	1.00[AMR][1000 genomes]
rs17052424	1.00[AMR][1000 genomes]
rs17052427	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2079928	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57607481	1.00[AMR][1000 genomes]
rs57789542	0.85[AFR][1000 genomes]
rs57931767	1.00[AMR][1000 genomes]
rs58057636	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59182119	1.00[AMR][1000 genomes]
rs60133283	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60945641	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61229218	0.83[AMR][1000 genomes]
rs6767229	1.00[AMR][1000 genomes]
rs6779626	1.00[AMR][1000 genomes]
rs6796577	1.00[AMR][1000 genomes]
rs6803865	1.00[AMR][1000 genomes]
rs72960298	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7615320	1.00[AMR][1000 genomes]
rs7616059	1.00[AMR][1000 genomes]
rs7649820	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv984563	chr3:52516115-52867075	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv834698	chr3:52749983-52928219	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
3	esv2762328	chr3:52774884-53002150	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	esv3446915	chr3:52786850-53049217	Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv1010761	chr3:52804547-52851258	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52805600-52825800	Weak transcription	Right Ventricle	heart
2	chr3:52810200-52816600	Enhancers	HepG2	liver
3	chr3:52810800-52815600	Weak transcription	Fetal Thymus	thymus
4	chr3:52812000-52815600	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr3:52812000-52816200	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr3:52812200-52814400	Enhancers	GM12878-XiMat	blood
7	chr3:52812400-52814600	Enhancers	Primary B cells from peripheral blood	blood
8	chr3:52813000-52814400	Enhancers	Primary B cells from cord blood	blood
9	chr3:52813000-52815800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr3:52813000-52815800	Weak transcription	Spleen	Spleen
11	chr3:52813400-52814400	Flanking Active TSS	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links