Variant report

Variant	rs9948580
Chromosome Location	chr18:29790740-29790741
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11081753	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962785	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962793	1.00[TSI][hapmap];0.83[AMR][1000 genomes]
rs16962851	0.82[ASW][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962856	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962889	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28450768	1.00[EUR][1000 genomes]
rs28451536	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28516907	1.00[AMR][1000 genomes]
rs7230791	1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7231076	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7234401	0.89[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7238073	0.82[ASW][hapmap];0.83[YRI][hapmap]
rs73421919	1.00[EUR][1000 genomes]
rs73956852	1.00[EUR][1000 genomes]
rs73956854	1.00[EUR][1000 genomes]
rs9675713	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9945189	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9946947	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9948293	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9950695	1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9952703	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9952884	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9954412	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9955257	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9959396	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9960121	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9961328	0.82[ASW][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9961628	0.82[ASW][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9964636	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9967163	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

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	nsv1056007	chr18:29711974-29899564	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29784600-29795200	Enhancers	Fetal Intestine Large	intestine
2	chr18:29786800-29791200	Enhancers	Liver	Liver
3	chr18:29786800-29795200	Enhancers	Fetal Intestine Small	intestine
4	chr18:29788800-29793000	Weak transcription	HepG2	liver
5	chr18:29790200-29791200	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr18:29790400-29790800	Enhancers	Rectal Mucosa Donor 29	rectum
7	chr18:29790400-29791000	Enhancers	Sigmoid Colon	Sigmoid Colon
8	chr18:29790400-29793200	Weak transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links