Variant report

Variant	rs7270374
Chromosome Location	chr20:22711334-22711335
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:22706677..22709268-chr20:22709943..22712765,2	K562	blood:
2	chr20:22710372..22712903-chr20:23336432..23339661,3	MCF-7	breast:
3	chr20:22710759..22713197-chr20:22776694..22778472,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000232645	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs12479587	0.80[EUR][1000 genomes]
rs13036614	0.81[EUR][1000 genomes]
rs13036740	0.81[EUR][1000 genomes]
rs13037649	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13037911	0.80[EUR][1000 genomes]
rs13039474	0.81[EUR][1000 genomes]
rs4371419	0.83[EUR][1000 genomes]
rs4514951	0.83[EUR][1000 genomes]
rs4603850	0.83[EUR][1000 genomes]
rs6036197	0.82[EUR][1000 genomes]
rs6036200	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6036203	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036204	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036205	0.81[EUR][1000 genomes]
rs6036206	0.81[EUR][1000 genomes]
rs6036212	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6036213	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6048280	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6048283	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6048284	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6048291	0.81[EUR][1000 genomes]
rs6048298	0.81[EUR][1000 genomes]
rs6048300	0.83[CEU][hapmap];0.80[MEX][hapmap];0.92[TSI][hapmap];0.81[EUR][1000 genomes]
rs6048302	0.89[TSI][hapmap]
rs6048326	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6048331	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6048332	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6048333	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6075943	0.81[EUR][1000 genomes]
rs6113789	0.80[EUR][1000 genomes]
rs7262725	0.95[TSI][hapmap];0.83[EUR][1000 genomes]
rs7270196	0.83[EUR][1000 genomes]
rs965762	0.89[EUR][1000 genomes];0.99[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	nsv1061382	chr20:22706041-22763200	ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1057305	chr20:22711334-22733613	ZNF genes & repeats Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7270374	GGTLC1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:22710400-22713600	Weak transcription	Spleen	Spleen
2	chr20:22710600-22715400	Weak transcription	Stomach Mucosa	stomach

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