Variant report

Variant	rs11778739
Chromosome Location	chr8:10147305-10147306
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10089244	0.86[CEU][hapmap];0.80[AMR][1000 genomes]
rs10105815	0.82[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs10903323	0.83[CHD][hapmap]
rs11249981	0.98[ASN][1000 genomes]
rs11249982	0.80[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs11249983	0.82[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11782868	0.81[CHD][hapmap]
rs11990063	0.82[CEU][hapmap];0.81[CHD][hapmap]
rs11994805	0.86[CEU][hapmap]
rs13250850	0.87[EUR][1000 genomes]
rs13276526	0.85[CEU][hapmap];0.89[EUR][1000 genomes]
rs13278498	0.88[EUR][1000 genomes]
rs17151588	0.91[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17151700	0.81[JPT][hapmap]
rs34113732	0.80[EUR][1000 genomes]
rs34328494	0.88[EUR][1000 genomes]
rs36089236	0.91[ASN][1000 genomes]
rs4240641	0.81[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs4240642	0.81[ASN][1000 genomes]
rs4307347	0.83[CHD][hapmap]
rs4403412	0.95[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4503102	0.95[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.95[TSI][hapmap]
rs4506212	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4577961	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4840474	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4841311	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56654851	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6601428	0.95[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7003360	0.91[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7004254	0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71509165	0.90[EUR][1000 genomes]
rs723610	0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs764738	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7821327	0.82[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs7842154	0.91[CEU][hapmap];0.80[CHB][hapmap];0.85[JPT][hapmap];0.82[AMR][1000 genomes]
rs9644722	0.82[EUR][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	nsv1021921	chr8:9958259-10212555	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv831231	chr8:10001214-10189094	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1030934	chr8:10065169-10561161	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1016347	chr8:10091475-10223667	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1028650	chr8:10101815-10178537	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs11778739	C8orf5	Cis_1M	lymphoblastoid	RTeQTL
rs11778739	C8orf74	cis	parietal	SCAN
rs11778739	PRSS55	cis	cerebellum	SCAN
rs11778739	CTSB	cis	cerebellum	SCAN
rs11778739	MSRA	cis	parietal	SCAN
rs11778739	FAM167A	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:10134200-10147600	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr8:10144200-10150600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr8:10144400-10149800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr8:10144400-10150600	Weak transcription	Fetal Muscle Leg	muscle
5	chr8:10144400-10167000	Weak transcription	Right Ventricle	heart
6	chr8:10145600-10150800	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr8:10146400-10147600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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