Variant report

Variant	rs57654067
Chromosome Location	chr3:98280720-98280721
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1381085	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1461161	0.82[AFR][1000 genomes]
rs1729964	0.85[AFR][1000 genomes]
rs1729996	0.85[AFR][1000 genomes]
rs2204745	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2316127	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58943879	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6797035	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9850648	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv528056	chr3:98101101-98317836	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv520503	chr3:98102801-98317836	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv834775	chr3:98170059-98367552	Enhancers Transcr. at gene 5' and 3' Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	esv3390386	chr3:98174549-98579953	Genic enhancers Strong transcription Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv591065	chr3:98204198-98766326	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98273600-98292600	Weak transcription	K562	blood
2	chr3:98275600-98280800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr3:98276600-98280800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr3:98277600-98280800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr3:98277600-98280800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr3:98279600-98282000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr3:98279600-98286000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr3:98279800-98280800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr3:98280200-98280800	Active TSS	GM12878-XiMat	blood
10	chr3:98280200-98281000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr3:98280400-98280800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr3:98280400-98283200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
13	chr3:98280400-98285800	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr3:98280400-98287000	Enhancers	Primary T cells fromperipheralblood	blood
15	chr3:98280600-98280800	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr3:98280600-98280800	Enhancers	Monocytes-CD14+_RO01746	blood
17	chr3:98280600-98285000	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr3:98280600-98286800	Enhancers	Primary T killer memory cells from peripheral blood	blood
19	chr3:98280600-98287000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
20	chr3:98280600-98288000	Enhancers	Primary T helper cells fromperipheralblood	blood

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