Variant report

Variant	rs6907460
Chromosome Location	chr6:54881047-54881048
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10456178	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10948880	0.81[ASN][1000 genomes]
rs10948881	0.88[ASN][1000 genomes]
rs1115159	0.82[CHB][hapmap]
rs11966562	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12192396	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12213653	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1503147	0.82[CHB][hapmap]
rs3105258	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3125276	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4078034	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4141552	0.82[CHB][hapmap]
rs4283890	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4296890	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4339456	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4398735	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4438959	0.86[EUR][1000 genomes]
rs4454122	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4484524	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4492195	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4518493	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4518494	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4563716	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4601130	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4601131	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4636027	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4712085	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4712086	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4712092	1.00[CHB][hapmap]
rs4715497	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4715498	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4715504	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs62416360	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62416378	0.82[AMR][1000 genomes]
rs62416556	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6906829	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6908172	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6908568	0.81[ASN][1000 genomes]
rs6918018	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6920563	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7453866	0.82[CHB][hapmap]
rs7746448	0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7753352	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7755108	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7760318	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9357829	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9357831	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9357840	0.88[CHB][hapmap]
rs9367608	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9370364	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9370373	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9382434	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9382442	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9396032	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9396036	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs9464180	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9475127	0.82[EUR][1000 genomes];0.95[ASN][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	esv3364886	chr6:54880042-54912395	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
2	esv3368520	chr6:54881042-54905736	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6907460	DENND3	trans	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54877200-54881200	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr6:54879400-54881400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr6:54879800-54882400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr6:54880000-54881200	Weak transcription	Fetal Stomach	stomach
5	chr6:54880000-54881400	Weak transcription	Stomach Mucosa	stomach
6	chr6:54880000-54881600	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr6:54880400-54883200	Enhancers	Fetal Intestine Large	intestine
8	chr6:54880400-54883200	Enhancers	Fetal Lung	lung
9	chr6:54880800-54883400	Enhancers	Fetal Intestine Small	intestine
10	chr6:54881000-54881200	Enhancers	Duodenum Smooth Muscle	Duodenum
11	chr6:54881000-54881600	Weak transcription	Rectal Mucosa Donor 31	rectum

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