Variant report

Variant	rs11595335
Chromosome Location	chr10:45087088-45087089
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CXCL12-3	chr10:45086656-45087232	XLOC_008796

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1002588	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10450453	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10450471	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11239171	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11592569	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11593138	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11593585	0.97[ASN][1000 genomes]
rs11595799	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11596551	0.80[ASN][1000 genomes]
rs11597734	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11598774	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11598916	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12254926	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12258288	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1572202	0.82[EUR][1000 genomes]
rs1585912	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17156606	0.81[EUR][1000 genomes]
rs17156636	0.95[ASN][1000 genomes]
rs17407291	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17408225	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17485517	0.82[EUR][1000 genomes]
rs17485977	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17486117	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17487074	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1977896	0.80[ASN][1000 genomes]
rs1977897	0.80[ASN][1000 genomes]
rs34071927	0.95[ASN][1000 genomes]
rs4306259	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs57991475	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7068018	0.83[EUR][1000 genomes]
rs7075674	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7084757	0.82[EUR][1000 genomes]
rs72795018	0.82[EUR][1000 genomes]
rs72795035	0.82[EUR][1000 genomes]
rs72795043	0.80[ASN][1000 genomes]
rs72795057	0.90[ASN][1000 genomes]
rs72795059	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72795073	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72795075	0.81[EUR][1000 genomes]
rs72795078	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72795079	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7898402	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7898623	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422287	chr10:45044161-45257684	Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1042549	chr10:45071890-45117466	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv831843	chr10:45084703-45280032	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:45084600-45089400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:45085200-45089400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr10:45086000-45089400	Weak transcription	Colon Smooth Muscle	Colon

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