Variant report

Variant	rs11959608
Chromosome Location	chr5:146902047-146902048
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11167991	0.96[EUR][1000 genomes]
rs12186397	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12653303	1.00[CEU][hapmap];0.96[TSI][hapmap];0.95[EUR][1000 genomes]
rs1432845	0.95[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs4705040	0.94[CEU][hapmap];0.96[TSI][hapmap];0.97[EUR][1000 genomes]
rs56348704	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57813393	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59183728	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67890710	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6860091	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs726054	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs72833356	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72833358	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72833362	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72833367	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72833377	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73264243	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73794776	0.95[EUR][1000 genomes]
rs7726760	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11959608	POU4F3	cis	parietal	SCAN
rs11959608	SH3TC2	cis	cerebellum	SCAN
rs11959608	SCGB3A2	cis	parietal	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:146898800-146904200	Enhancers	Brain Germinal Matrix	brain
2	chr5:146899000-146902600	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr5:146901000-146902800	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr5:146901000-146903400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr5:146901200-146903200	Enhancers	NHLF	lung
6	chr5:146901200-146903400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:146901200-146903400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr5:146901400-146903200	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr5:146901400-146903400	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr5:146901400-146903400	Enhancers	HUVEC	blood vessel
11	chr5:146901600-146902200	Enhancers	HMEC	breast
12	chr5:146901600-146903000	Enhancers	NHDF-Ad	bronchial
13	chr5:146901600-146903400	Enhancers	NH-A	brain
14	chr5:146901800-146903000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr5:146901800-146903200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr5:146901800-146903400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr5:146902000-146902200	Enhancers	H1 Cell Line	embryonic stem cell
18	chr5:146902000-146902800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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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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