Variant report

Variant	rs9861525
Chromosome Location	chr3:60004908-60004909
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11130746	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3845970	0.90[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3845971	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.94[TSI][hapmap];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9816955	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs9817092	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9819370	0.88[EUR][1000 genomes]
rs9843907	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9854540	0.98[ASN][1000 genomes]
rs9868731	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs9869016	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs9874888	0.83[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 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
4	nsv590388	chr3:59957252-60018326	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59996800-60011600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:59997200-60005800	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr3:59999000-60005000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr3:60000800-60012600	Enhancers	Primary T killer memory cells from peripheral blood	blood
5	chr3:60002200-60005800	Enhancers	Primary T cells fromperipheralblood	blood
6	chr3:60002200-60005800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr3:60003600-60009400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:60003600-60012800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr3:60003800-60011200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr3:60003800-60021200	Weak transcription	Thymus	Thymus
11	chr3:60004200-60007400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
12	chr3:60004400-60005200	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr3:60004400-60007000	Weak transcription	Primary T cells from cord blood	blood
14	chr3:60004400-60009000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr3:60004600-60008000	Weak transcription	Fetal Heart	heart
16	chr3:60004800-60005800	Genic enhancers	Dnd41	blood
17	chr3:60004800-60009000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr3:60004800-60009000	Weak transcription	Fetal 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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