Variant report

Variant	rs11856043
Chromosome Location	chr15:82274573-82274574
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11073032	0.88[CEU][hapmap]
rs11857577	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12324755	0.83[CHB][hapmap];0.91[CHD][hapmap];0.89[GIH][hapmap]
rs12592587	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12594239	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12905306	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12914166	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12916310	1.00[CEU][hapmap]
rs12916537	0.94[CEU][hapmap];1.00[GIH][hapmap];0.93[TSI][hapmap]
rs12917010	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1503063	0.93[CEU][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1503064	0.94[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1503066	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs33953247	0.89[ASN][1000 genomes]
rs34268394	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35411469	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4563005	1.00[ASW][hapmap];0.88[CEU][hapmap];0.96[GIH][hapmap];0.84[LWK][hapmap];0.96[TSI][hapmap];0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7172661	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7177796	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7342622	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8024021	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8030818	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8032116	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8033692	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8035454	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8038252	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv427964	chr15:81941520-82293593	ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv833067	chr15:82234980-82450485	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11856043	C15orf5	cis	parietal	SCAN
rs11856043	RP11-276M12.1	cis	lung	GTEx
rs11856043	C15orf40	cis	parietal	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:82273800-82274600	Enhancers	Fetal Brain Male	brain
2	chr15:82273800-82274800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr15:82273800-82287400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:82274000-82274600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:82274000-82274600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr15:82274000-82274600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr15:82274000-82274600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr15:82274000-82274600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr15:82274000-82274600	Enhancers	Brain Germinal Matrix	brain
10	chr15:82274000-82274600	Enhancers	Fetal Stomach	stomach
11	chr15:82274000-82274800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr15:82274200-82274600	Enhancers	Fetal Lung	lung
13	chr15:82274200-82274800	Enhancers	Brain Anterior Caudate	brain
14	chr15:82274200-82274800	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr15:82274200-82287400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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