Variant report

Variant	rs6768879
Chromosome Location	chr3:47586055-47586056
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs11130133	0.85[ASN][1000 genomes]
rs11130137	0.90[ASN][1000 genomes]
rs11707895	0.90[ASN][1000 genomes]
rs11711265	0.88[ASN][1000 genomes]
rs11713413	0.83[ASN][1000 genomes]
rs11914932	0.86[ASN][1000 genomes]
rs1564760	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1564761	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17784882	0.83[ASN][1000 genomes]
rs1872166	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2291298	0.87[ASN][1000 genomes]
rs34634681	0.90[ASN][1000 genomes]
rs4599332	0.83[ASN][1000 genomes]
rs4858856	0.88[ASN][1000 genomes]
rs62260710	0.88[ASN][1000 genomes]
rs62260711	0.88[ASN][1000 genomes]
rs62260741	0.89[ASN][1000 genomes]
rs6790763	0.89[ASN][1000 genomes]
rs7628631	0.88[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876756	chr3:47002931-47586514	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6768879	KLHL18	Cis_1M	lymphoblastoid	RTeQTL
rs6768879	SETD2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:47578800-47586400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:47584200-47607800	Weak transcription	Brain Germinal Matrix	brain
3	chr3:47585200-47586400	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr3:47586000-47588200	Weak transcription	K562	blood

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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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