Variant report

Variant	rs17107959
Chromosome Location	chr14:79093869-79093870
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10141397	1.00[MEX][hapmap]
rs11848037	1.00[MEX][hapmap]
rs1559538	1.00[MEX][hapmap]
rs17107903	1.00[MEX][hapmap]
rs17107909	0.81[YRI][hapmap]
rs17107945	0.91[YRI][hapmap];0.83[AFR][1000 genomes]
rs59887424	0.87[AFR][1000 genomes]
rs59894315	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs74064161	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs74064167	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs74064319	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs74064320	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2760000	chr14:78875607-79173528	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	esv2758363	chr14:78903610-79173528	Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	esv34435	chr14:79055398-79111151	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
4	esv2757578	chr14:79055398-79140536	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
5	nsv1367	chr14:79067521-79106387	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs17107959	EIF1AY	trans	lymphoblastoid	seeQTL
rs17107959	RPS4Y1	trans	lymphoblastoid	seeQTL
rs17107959	KDM5D	trans	lymphoblastoid	seeQTL
rs17107959	KDM5C	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:79093200-79094000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr14:79093200-79094000	Enhancers	Brain Anterior Caudate	brain
3	chr14:79093200-79094000	Enhancers	Brain Germinal Matrix	brain
4	chr14:79093200-79094000	Enhancers	Brain Hippocampus Middle	brain
5	chr14:79093200-79097400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr14:79093600-79094000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr14:79093600-79094000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr14:79093600-79094000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr14:79093600-79094000	Enhancers	Brain Inferior Temporal Lobe	brain
10	chr14:79093600-79094000	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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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

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