Variant report

Variant	rs1405085
Chromosome Location	chr2:39781567-39781568
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12712645	0.84[EUR][1000 genomes]
rs12994521	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13015976	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13020343	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13035388	0.87[ASN][1000 genomes]
rs1526027	0.93[EUR][1000 genomes]
rs17474808	0.84[ASN][1000 genomes]
rs17533512	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4670944	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6745941	0.93[EUR][1000 genomes]
rs71439259	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs734663	0.81[GIH][hapmap]

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	nsv833858	chr2:39684483-39856498	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1405085	MAP4K3	cis	cerebellum	SCAN
rs1405085	DHX57	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39762200-39785000	Weak transcription	HSMMtube	muscle
2	chr2:39770800-39789600	Weak transcription	Left Ventricle	heart
3	chr2:39778000-39788000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr2:39778400-39791800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr2:39778800-39797400	Weak transcription	Fetal Heart	heart
6	chr2:39780400-39783200	Weak transcription	HepG2	liver

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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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