Variant report

Variant	rs2642465
Chromosome Location	chr6:107161532-107161533
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1852982	0.93[ASN][1000 genomes]
rs2642466	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2748291	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2798364	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3127663	0.89[EUR][1000 genomes]
rs6940205	0.83[GIH][hapmap];0.86[TSI][hapmap]
rs926925	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9398105	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2642465	AIM1	cis	cerebellum	SCAN
rs2642465	PREP	cis	parietal	SCAN
rs2642465	RTN4IP1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:107151000-107162200	Weak transcription	Fetal Kidney	kidney
2	chr6:107158600-107162200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr6:107158800-107163600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:107158800-107169200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr6:107160400-107163600	Enhancers	Primary B cells from cord blood	blood
6	chr6:107160800-107163600	Enhancers	Primary B cells from peripheral blood	blood
7	chr6:107161400-107161600	Enhancers	Stomach Mucosa	stomach
8	chr6:107161400-107161800	Enhancers	Fetal Intestine Large	intestine
9	chr6:107161400-107161800	Enhancers	GM12878-XiMat	blood
10	chr6:107161400-107162400	Enhancers	HepG2	liver
11	chr6:107161400-107162600	Enhancers	Pancreas	Pancrea
12	chr6:107161400-107163200	Weak transcription	HUES48 Cell Line	embryonic stem cell

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