Variant report

Variant	rs12884777
Chromosome Location	chr14:72461160-72461161
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	JUN	chr14:72461131-72461461	HepG2	liver:	n/a	n/a
2	JUND	chr14:72461029-72461499	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ENSG00000257040	TF binding region

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10150071	0.96[ASN][1000 genomes]
rs10483837	0.86[CEU][hapmap]
rs12885258	0.91[CEU][hapmap]
rs12896825	0.86[CEU][hapmap]
rs17104975	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs17104979	0.93[JPT][hapmap]
rs17105025	0.94[JPT][hapmap]
rs17105032	0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs17105061	0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs1860105	0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs1989628	0.83[ASN][1000 genomes]
rs2067854	0.86[CEU][hapmap]
rs2190872	0.94[JPT][hapmap]
rs2238274	0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs2238275	0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs2238276	0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs2238283	0.84[JPT][hapmap]
rs2238285	0.81[JPT][hapmap]
rs2283422	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs23219	0.81[JPT][hapmap]
rs2877774	0.86[CEU][hapmap]
rs4902960	0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs4902961	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4902965	0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs56661004	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56731686	0.83[ASN][1000 genomes]
rs58002698	0.86[ASN][1000 genomes]
rs60545259	0.86[ASN][1000 genomes]
rs7143919	0.93[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.96[ASN][1000 genomes]
rs7156200	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs720391	0.83[ASN][1000 genomes]
rs73293246	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74060440	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs764624	0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs764625	0.91[CEU][hapmap]
rs929444	0.86[CEU][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	nsv530794	chr14:72113818-73034008	Enhancers Bivalent/Poised TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12884777	GPR183	trans	lymphoblastoid	seeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:72457000-72461200	Weak transcription	Fetal Heart	heart
2	chr14:72457400-72462000	Weak transcription	Right Ventricle	heart
3	chr14:72457600-72462000	Weak transcription	Left Ventricle	heart
4	chr14:72460800-72462200	Strong transcription	Cortex derived primary cultured neurospheres	brain
5	chr14:72461000-72462600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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