Variant report

Variant	rs10948880
Chromosome Location	chr6:54882003-54882004
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11754240	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11756900	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12664361	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13192291	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13208701	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3105258	0.81[ASN][1000 genomes]
rs4588693	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4712085	0.81[ASN][1000 genomes]
rs4712086	0.81[ASN][1000 genomes]
rs4715515	0.81[AMR][1000 genomes]
rs6907460	0.81[ASN][1000 genomes]
rs6908172	0.81[ASN][1000 genomes]
rs6908568	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739399	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8180551	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9349753	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9357840	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9367602	0.80[ASN][1000 genomes]
rs9367607	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9370351	0.80[ASN][1000 genomes]
rs9370352	0.80[ASN][1000 genomes]
rs9370371	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9370388	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9382411	0.80[ASN][1000 genomes]
rs9382440	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9396034	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9396036	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9464182	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9475106	0.80[ASN][1000 genomes]
rs9475107	0.80[ASN][1000 genomes]
rs9475130	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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
3	nsv1033756	chr6:54881828-54944304	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv538225	chr6:54881828-54944304	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54879800-54882400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr6:54880400-54883200	Enhancers	Fetal Intestine Large	intestine
3	chr6:54880400-54883200	Enhancers	Fetal Lung	lung
4	chr6:54880800-54883400	Enhancers	Fetal Intestine Small	intestine
5	chr6:54881600-54882400	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr6:54881600-54882600	Enhancers	Duodenum Mucosa	Duodenum
7	chr6:54881600-54883000	Enhancers	Skeletal Muscle Male	skeletal muscle
8	chr6:54882000-54882200	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:54882000-54883000	Weak transcription	Small Intestine	intestine

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