Variant report

Variant	rs28527790
Chromosome Location	chr15:38930660-38930661
allele	C/T
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:9)

rs_ID	r²[population]
rs12442571	0.85[AMR][1000 genomes]
rs12442607	0.85[AMR][1000 genomes]
rs16967146	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28477135	1.00[EUR][1000 genomes]
rs8035966	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8036684	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8036852	0.85[AMR][1000 genomes]
rs8041149	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8043341	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949171	chr15:38232548-39033746	Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv904085	chr15:38786114-38985513	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1046994	chr15:38806163-39239014	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv525770	chr15:38816833-39084956	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1054651	chr15:38827825-39082844	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv542358	chr15:38827825-39082844	Bivalent/Poised TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv904086	chr15:38829198-38931396	Enhancers Bivalent Enhancer Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:38925400-38930800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr15:38926800-38932000	Enhancers	Thymus	Thymus
3	chr15:38927000-38936200	Enhancers	Fetal Thymus	thymus
4	chr15:38928800-38931600	Enhancers	Dnd41	blood
5	chr15:38928800-38935000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr15:38929600-38932000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr15:38929800-38931600	Enhancers	Primary T cells from cord blood	blood
8	chr15:38929800-38931800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr15:38930000-38931800	Enhancers	Primary hematopoietic stem cells	blood
10	chr15:38930000-38932000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr15:38930000-38932200	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr15:38930200-38931400	Enhancers	Primary B cells from peripheral blood	blood
13	chr15:38930200-38931800	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr15:38930400-38931800	Enhancers	Primary hematopoietic stem cells short term culture	blood
15	chr15:38930600-38930800	Enhancers	Primary T killer memory cells from peripheral blood	blood
16	chr15:38930600-38932200	Enhancers	Primary T killer naive cells fromperipheralblood	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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