Variant report

Variant	rs4360891
Chromosome Location	chr15:78018854-78018855
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11072662	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11072663	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11072665	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11072666	0.85[EUR][1000 genomes]
rs11629729	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11631410	0.91[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11633354	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11637588	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11856761	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12903563	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12911718	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12915704	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28406214	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34906247	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35028279	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35761651	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs36058724	0.97[EUR][1000 genomes]
rs4073356	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4076998	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4243048	0.83[EUR][1000 genomes]
rs4334265	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4468571	0.82[ASN][1000 genomes]
rs4477663	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4578613	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4595768	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4886521	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4886898	1.00[CEU][hapmap];0.89[GIH][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4886899	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4886900	0.88[EUR][1000 genomes]
rs4886901	0.82[CHB][hapmap];0.80[JPT][hapmap];0.83[ASN][1000 genomes]
rs4886902	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.98[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56370262	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6495245	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7175083	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7176668	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8027520	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8027667	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8043490	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
6	nsv833061	chr15:77998374-78121905	Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv570150	chr15:78004743-78038124	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv570159	chr15:78008843-78022087	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4360891	NR2E3	cis	cerebellum	SCAN
rs4360891	CYP1A1	cis	cerebellum	SCAN
rs4360891	SIN3A	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78013000-78031200	Weak transcription	Fetal Brain Female	brain
2	chr15:78014000-78031000	Weak transcription	Spleen	Spleen
3	chr15:78016000-78020400	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr15:78016600-78020200	Weak transcription	Fetal Muscle Leg	muscle
5	chr15:78016800-78020400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr15:78016800-78021400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr15:78017200-78024400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr15:78017200-78024800	Weak transcription	Brain Angular Gyrus	brain
9	chr15:78018400-78019600	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links