Variant report

Variant	rs2760239
Chromosome Location	chr6:118231888-118231889
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1016084	0.89[CHB][hapmap]
rs1028689	0.89[CHB][hapmap]
rs12526002	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12662276	0.89[CHB][hapmap];0.82[ASN][1000 genomes]
rs12664437	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1416423	0.89[CHB][hapmap]
rs2355789	0.82[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4946303	0.89[CHB][hapmap]
rs7763418	0.81[EUR][1000 genomes]
rs7763925	0.89[CHB][hapmap]

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	nsv530526	chr6:118027339-118718476	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv522455	chr6:118228527-118240685	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2760239	SLC2A13	trans	parietal	SCAN
rs2760239	FAM162B	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:118229800-118241400	Weak transcription	Gastric	stomach
2	chr6:118230800-118232000	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr6:118230800-118236400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:118230800-118238000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr6:118230800-118239400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr6:118231400-118232000	Enhancers	Brain Germinal Matrix	brain
7	chr6:118231800-118232000	ZNF genes & repeats	Aorta	Aorta
8	chr6:118231800-118232000	Enhancers	Brain Cingulate Gyrus	brain

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