Variant report

Variant	rs9515542
Chromosome Location	chr13:89867419-89867420
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLITRK6-10	chr13:89867101-89867581	XLOC_010684
2	lnc-SLITRK6-10	chr13:89867150-89867581	XLOC_010684
3	lnc-SLITRK6-10	chr13:89867101-89867581	ENSG00000232225.2
4	lnc-SLITRK6-10	chr13:89867150-89867581	ENSG00000232225.2

Extended variants
information (count: 118 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs1023806	0.85[EUR][1000 genomes]
rs10459312	0.96[ASN][1000 genomes]
rs10459313	0.96[ASN][1000 genomes]
rs1157962	0.84[EUR][1000 genomes]
rs11843359	0.96[ASN][1000 genomes]
rs12877053	0.86[EUR][1000 genomes]
rs1334207	0.83[EUR][1000 genomes]
rs1373729	0.84[EUR][1000 genomes]
rs1412089	0.84[EUR][1000 genomes]
rs1412090	0.84[EUR][1000 genomes]
rs1412091	0.92[ASN][1000 genomes]
rs1412092	0.92[ASN][1000 genomes]
rs1412093	0.92[ASN][1000 genomes]
rs1413463	0.86[EUR][1000 genomes]
rs1413464	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1413465	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1577150	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs170238	0.85[EUR][1000 genomes]
rs178345	0.90[ASN][1000 genomes]
rs182608	0.85[EUR][1000 genomes]
rs1854904	0.85[EUR][1000 genomes]
rs186391	0.85[EUR][1000 genomes]
rs1867556	0.85[EUR][1000 genomes]
rs1888743	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1931486	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1981087	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2120871	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2120872	0.84[EUR][1000 genomes]
rs2166199	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2166202	0.84[EUR][1000 genomes]
rs221317	0.85[EUR][1000 genomes]
rs2781300	0.86[ASN][1000 genomes]
rs2781301	0.89[EUR][1000 genomes]
rs2781302	0.88[EUR][1000 genomes]
rs314527	0.82[ASN][1000 genomes]
rs314529	0.84[EUR][1000 genomes]
rs314537	0.89[ASN][1000 genomes]
rs314538	0.89[ASN][1000 genomes]
rs314539	0.89[ASN][1000 genomes]
rs314540	0.85[EUR][1000 genomes]
rs314541	0.85[EUR][1000 genomes]
rs314542	0.85[EUR][1000 genomes]
rs314543	0.89[ASN][1000 genomes]
rs314544	0.84[EUR][1000 genomes]
rs314545	0.89[ASN][1000 genomes]
rs314546	0.89[ASN][1000 genomes]
rs314547	0.88[ASN][1000 genomes]
rs314548	0.88[ASN][1000 genomes]
rs314549	0.88[ASN][1000 genomes]
rs314553	0.85[EUR][1000 genomes]
rs314554	0.90[ASN][1000 genomes]
rs314555	0.85[EUR][1000 genomes]
rs314556	0.85[EUR][1000 genomes]
rs314557	0.85[EUR][1000 genomes]
rs314558	0.85[EUR][1000 genomes]
rs314559	0.85[EUR][1000 genomes]
rs314560	0.89[ASN][1000 genomes]
rs314561	0.84[EUR][1000 genomes]
rs314564	0.89[EUR][1000 genomes]
rs314566	0.83[ASN][1000 genomes]
rs314567	0.85[EUR][1000 genomes]
rs314568	0.85[EUR][1000 genomes]
rs314569	0.85[ASN][1000 genomes]
rs314577	0.82[ASN][1000 genomes]
rs364362	0.83[EUR][1000 genomes]
rs366604	0.84[ASN][1000 genomes]
rs367111	0.85[EUR][1000 genomes]
rs368814	0.85[EUR][1000 genomes]
rs375273	0.91[ASN][1000 genomes]
rs387330	0.90[ASN][1000 genomes]
rs392223	0.85[EUR][1000 genomes]
rs393327	0.85[EUR][1000 genomes]
rs393546	0.85[EUR][1000 genomes]
rs397192	0.88[EUR][1000 genomes]
rs411403	0.87[ASN][1000 genomes]
rs412365	0.84[EUR][1000 genomes]
rs415309	0.85[EUR][1000 genomes]
rs415859	0.90[ASN][1000 genomes]
rs421843	0.92[ASN][1000 genomes]
rs430857	0.92[ASN][1000 genomes]
rs432539	0.85[EUR][1000 genomes]
rs454137	0.92[ASN][1000 genomes]
rs6492421	0.89[ASN][1000 genomes]
rs7320177	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7334436	0.84[EUR][1000 genomes]
rs7335501	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs734050	0.86[EUR][1000 genomes]
rs9301544	0.90[ASN][1000 genomes]
rs9301545	0.84[EUR][1000 genomes]
rs9301546	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9515543	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9522473	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9555852	0.90[EUR][1000 genomes]
rs9555857	0.95[ASN][1000 genomes]
rs9555858	0.96[ASN][1000 genomes]
rs9560248	0.94[ASN][1000 genomes]
rs9560249	0.94[ASN][1000 genomes]
rs9560250	0.94[ASN][1000 genomes]
rs9560251	0.96[ASN][1000 genomes]
rs9588553	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9588556	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900821	chr13:89302824-89941209	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv915862	chr13:89408920-90118030	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv2758339	chr13:89411081-89875974	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2759957	chr13:89411081-89875974	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1040210	chr13:89584630-90156186	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1048574	chr13:89650680-90232894	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
7	nsv900844	chr13:89721607-89944833	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv832675	chr13:89772410-89926955	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv900847	chr13:89788636-89873873	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv900851	chr13:89797903-89941209	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
11	nsv900852	chr13:89817399-89908281	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv900853	chr13:89824076-89873873	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
13	nsv900854	chr13:89824076-89898500	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv900855	chr13:89824076-89908281	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
15	nsv900856	chr13:89824076-89922393	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
16	nsv900857	chr13:89824076-89934019	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
17	nsv900858	chr13:89830501-89873873	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	4 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	chr13:89865800-89867600	Enhancers	Fetal Lung	lung
2	chr13:89866600-89867600	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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