Variant report

Variant	rs9839754
Chromosome Location	chr3:59942704-59942705
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs13322304	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13322587	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13325381	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35717439	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6789121	1.00[AMR][1000 genomes]
rs6789228	1.00[AMR][1000 genomes]
rs73839796	0.96[AFR][1000 genomes]
rs73842103	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73842104	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9820238	1.00[CEU][hapmap]
rs9838143	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9855384	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9875209	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][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	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014983	chr3:59884024-60558331	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv590387	chr3:59890976-60481459	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59928800-59942800	Weak transcription	Primary T helper cells fromperipheralblood	blood
2	chr3:59933200-59942800	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr3:59936600-59945600	Strong transcription	Dnd41	blood
4	chr3:59939600-59942800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr3:59941200-59947600	Strong transcription	Primary T cells from cord blood	blood
6	chr3:59942000-59945800	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr3:59942200-59943200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:59942200-59943400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr3:59942600-59943200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr3:59942600-59943800	Enhancers	Primary T killer memory cells from peripheral blood	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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