Variant report

Variant	rs3901416
Chromosome Location	chr3:112767482-112767483
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs11718449	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12495569	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34671634	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3868879	0.87[EUR][1000 genomes]
rs3872611	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6438125	0.87[EUR][1000 genomes]
rs7620940	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7642680	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7650483	0.86[EUR][1000 genomes]
rs7650656	0.80[EUR][1000 genomes]

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	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv3951	chr3:112759554-112800236	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3901416	GTPBP8	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112740800-112770200	Weak transcription	Primary T cells from cord blood	blood
2	chr3:112763000-112789200	Weak transcription	HSMMtube	muscle
3	chr3:112764400-112770000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr3:112764400-112770400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr3:112766000-112770000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:112767200-112769800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr3:112767200-112770400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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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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