Variant report

Variant	rs41489045
Chromosome Location	chr4:91869226-91869227
allele	G/T
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:27)

rs_ID	r²[population]
rs10461125	1.00[ASW][hapmap];0.85[CEU][hapmap];0.82[GIH][hapmap];0.94[MEX][hapmap];0.93[TSI][hapmap]
rs10516886	0.80[CHB][hapmap]
rs11097283	0.82[ASW][hapmap];0.96[CEU][hapmap];0.85[CHB][hapmap];0.93[CHD][hapmap];0.94[GIH][hapmap];0.83[MKK][hapmap];0.95[TSI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11097284	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1381300	0.80[CHB][hapmap]
rs1473372	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17199344	0.84[CEU][hapmap];0.89[CHB][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17200097	0.80[TSI][hapmap]
rs17200531	0.80[CHB][hapmap]
rs17265766	1.00[ASW][hapmap];0.85[CEU][hapmap];0.90[CHB][hapmap];0.86[CHD][hapmap];0.88[GIH][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];0.95[MKK][hapmap];0.93[TSI][hapmap];1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17266413	0.85[CEU][hapmap];0.80[CHB][hapmap]
rs2035115	0.80[CHB][hapmap]
rs2035116	1.00[ASW][hapmap];0.90[CHB][hapmap];0.83[CHD][hapmap];0.88[GIH][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap]
rs2054332	1.00[ASW][hapmap];0.85[CEU][hapmap];0.85[CHB][hapmap];0.86[CHD][hapmap];0.85[GIH][hapmap];0.94[MEX][hapmap];0.93[TSI][hapmap]
rs2126217	0.85[CEU][hapmap];0.85[CHB][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2169367	0.82[CEU][hapmap];0.83[EUR][1000 genomes]
rs56057223	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs57040256	1.00[AFR][1000 genomes]
rs58981735	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59871981	0.83[EUR][1000 genomes]
rs62309774	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62309777	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62309789	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62309791	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62309833	0.81[EUR][1000 genomes]
rs72665459	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs728701	0.81[EUR][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	nsv879555	chr4:91743538-91967602	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv491945	chr4:91753638-92240582	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv10533	chr4:91842776-91935992	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv594834	chr4:91866171-91872431	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs41489045	KLHL8	cis	parietal	SCAN
rs41489045	HSD17B13	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:91868400-91870600	Weak transcription	Hela-S3	cervix
2	chr4:91868400-91871000	Weak transcription	A549	lung

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