Variant report

Variant	rs6860091
Chromosome Location	chr5:146896655-146896656
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	0.97[EUR][1000 genomes]
rs11959608	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12186397	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12653303	1.00[CEU][hapmap];0.96[TSI][hapmap];0.98[EUR][1000 genomes]
rs1432845	0.99[EUR][1000 genomes]
rs4705040	0.94[CEU][hapmap];0.96[TSI][hapmap];0.98[EUR][1000 genomes]
rs56348704	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57813393	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59183728	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67890710	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs726054	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs72833356	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72833358	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72833362	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72833367	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72833377	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73264243	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73794776	0.98[EUR][1000 genomes]
rs7726760	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6860091	SCGB3A2	cis	parietal	SCAN
rs6860091	POU4F3	cis	parietal	SCAN
rs6860091	SH3TC2	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:146890200-146901200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr5:146890200-146901200	Weak transcription	NHLF	lung
3	chr5:146890200-146901600	Weak transcription	NHDF-Ad	bronchial
4	chr5:146892200-146898800	Weak transcription	Brain Germinal Matrix	brain
5	chr5:146896200-146897000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr5:146896200-146897000	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr5:146896200-146897000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr5:146896400-146899000	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr5:146896600-146896800	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr5:146896600-146898600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr5:146896600-146901200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr5:146896600-146901400	Weak transcription	HUVEC	blood vessel

Quick Search:

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

what's new

Quick links