Variant report

Variant	rs10004584
Chromosome Location	chr4:173801950-173801951
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1026505	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.94[GIH][hapmap];0.94[MEX][hapmap];0.82[MKK][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1116651	0.84[CHD][hapmap]
rs1116652	0.89[CEU][hapmap];0.82[CHB][hapmap];0.92[YRI][hapmap]
rs11935653	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs12512152	0.84[ASN][1000 genomes]
rs13112941	0.81[ASN][1000 genomes]
rs1350586	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs1459154	0.83[EUR][1000 genomes]
rs1459155	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1459156	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17058964	0.82[CHB][hapmap];0.84[ASN][1000 genomes]
rs17058973	0.82[CHB][hapmap]
rs17058981	0.89[ASW][hapmap];0.84[CEU][hapmap];0.84[CHD][hapmap];0.86[GIH][hapmap];0.95[LWK][hapmap];0.90[MKK][hapmap];0.90[TSI][hapmap];0.85[YRI][hapmap]
rs1903126	0.89[CEU][hapmap];0.81[CHB][hapmap];0.92[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1947639	0.84[ASN][1000 genomes]
rs28718496	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35447014	0.84[ASN][1000 genomes]
rs6553659	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6833917	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.88[GIH][hapmap];0.89[MEX][hapmap];0.82[MKK][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6844018	0.84[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.94[GIH][hapmap];0.88[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7660673	0.82[CHB][hapmap];0.89[ASN][1000 genomes]
rs7673435	0.82[CHB][hapmap];0.89[ASN][1000 genomes]
rs7691157	1.00[CEU][hapmap];0.91[CHB][hapmap]
rs898197	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9637709	0.83[ASW][hapmap];0.89[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.91[GIH][hapmap];0.88[MEX][hapmap];0.90[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9637710	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948856	chr4:173388217-173967546	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv949126	chr4:173466221-174051451	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv3327952	chr4:173591786-173805861	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv881394	chr4:173757115-173847405	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a
5	nsv289404	chr4:173798770-173804327	Enhancers	n/a	n/a	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10004584	GIP	trans	parietal	SCAN
rs10004584	VEGFC	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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