Variant report

Variant	rs854151
Chromosome Location	chr15:50542719-50542720
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs12440789	0.82[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs2853766	0.89[JPT][hapmap];0.89[MEX][hapmap];0.83[TSI][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59627287	0.80[ASN][1000 genomes]
rs854150	1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.86[ASN][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

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs854151	SLC24A5	cis	cerebellum	SCAN
rs854151	TRIM69	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50532400-50549600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:50537200-50544000	Enhancers	Liver	Liver
3	chr15:50539600-50544400	Enhancers	Hela-S3	cervix
4	chr15:50541000-50544800	Enhancers	HSMM	muscle
5	chr15:50542200-50543400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr15:50542200-50544200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr15:50542200-50548200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr15:50542400-50543200	Weak transcription	HSMMtube	muscle
9	chr15:50542400-50548400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr15:50542600-50543800	Enhancers	K562	blood

Quick Search:

Input of quick search could be:

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

what's new

Quick links