Variant report

Variant	rs16969090
Chromosome Location	chr15:39773218-39773219
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-THBS1-1	chr15:39773169-39773269	XLOC_011217
2	lnc-THBS1-1	chr15:39773169-39773221	XLOC_011217
3	lnc-THBS1-1	chr15:39773169-39773269	XLOC_011217
4	lnc-THBS1-1	chr15:39773169-39773297	XLOC_011217
5	lnc-THBS1-1	chr15:39773169-39773407	ENSG00000259269.1
6	lnc-THBS1-1	chr15:39773168-39773221	NONHSAT041751
7	lnc-THBS1-1	chr15:39773169-39773342	NONHSAT041755

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10520131	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11630143	0.86[ASN][1000 genomes]
rs11630296	0.86[ASN][1000 genomes]
rs11631131	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11631290	0.86[ASN][1000 genomes]
rs11631836	1.00[CEU][hapmap]
rs11634541	0.86[ASN][1000 genomes]
rs11634743	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11635229	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11635586	0.86[ASN][1000 genomes]
rs11637421	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16952114	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16952143	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16952145	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16952153	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16969087	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16969092	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16969119	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17702778	0.91[ASN][1000 genomes]
rs1973175	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3960597	1.00[JPT][hapmap]
rs3973348	1.00[JPT][hapmap]
rs3973349	1.00[JPT][hapmap]
rs4603529	1.00[ASN][1000 genomes]
rs4924364	0.88[ASN][1000 genomes]
rs55848083	0.86[ASN][1000 genomes]
rs56313937	0.86[ASN][1000 genomes]
rs56329829	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58157051	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58280064	0.86[ASN][1000 genomes]
rs60266259	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60313653	0.86[ASN][1000 genomes]
rs60420802	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60623717	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61545963	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7165434	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7166266	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171447	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171799	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7174276	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs73393456	0.86[ASN][1000 genomes]
rs73393472	0.86[ASN][1000 genomes]
rs73399395	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs74010136	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8042191	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39769400-39775600	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr15:39773200-39773600	Enhancers	Colon Smooth Muscle	Colon

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