Variant report

Variant	rs2629896
Chromosome Location	chr3:59827199-59827200
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1485725	0.87[CEU][hapmap];0.96[EUR][1000 genomes]
rs1485726	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1485729	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1485733	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2687903	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3112498	0.87[CEU][hapmap];0.90[EUR][1000 genomes]
rs615964	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs621666	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs669229	0.87[CEU][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs670885	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs677703	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs678981	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs687342	0.87[CEU][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014601	chr3:59666609-59888166	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv1003387	chr3:59756364-59831340	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv460563	chr3:59772342-59827390	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv590383	chr3:59772342-59827390	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	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
6	nsv876837	chr3:59800539-59842644	Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv460564	chr3:59821071-59927727	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv590384	chr3:59821071-59927727	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 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	chr3:59825000-59827200	Enhancers	Fetal Thymus	thymus
2	chr3:59825200-59827200	Enhancers	Primary T cells from cord blood	blood
3	chr3:59825200-59827200	Enhancers	Dnd41	blood
4	chr3:59825200-59827400	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr3:59825200-59828000	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr3:59825400-59827400	Enhancers	Primary T cells fromperipheralblood	blood
7	chr3:59825400-59827400	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr3:59825400-59828200	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr3:59826600-59829600	Weak transcription	Primary B cells from peripheral blood	blood
10	chr3:59827000-59828400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr3:59827000-59842800	Weak transcription	Thymus	Thymus

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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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