Variant report

Variant	rs28709471
Chromosome Location	chr15:50538852-50538853
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs16963418	1.00[AMR][1000 genomes]
rs16963486	1.00[AMR][1000 genomes]
rs28464719	1.00[AMR][1000 genomes]

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	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv1035983	chr15:50223334-50595170	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv542382	chr15:50223334-50595170	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 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	chr15:50503600-50539800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr15:50508000-50539800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr15:50530800-50539600	Weak transcription	Hela-S3	cervix
4	chr15:50532400-50549600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr15:50534600-50540000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr15:50535400-50539000	Enhancers	HepG2	liver
7	chr15:50535600-50540600	Weak transcription	Right Atrium	heart
8	chr15:50537000-50539800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr15:50537200-50544000	Enhancers	Liver	Liver
10	chr15:50538600-50539600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr15:50538600-50542400	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr15:50538800-50539000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr15:50538800-50539800	Enhancers	Primary neutrophils fromperipheralblood	blood
14	chr15:50538800-50539800	Enhancers	Primary hematopoietic stem cells	blood
15	chr15:50538800-50539800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr15:50538800-50541600	Enhancers	K562	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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