Variant report

Variant	rs1888743
Chromosome Location	chr13:89874125-89874126
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SETDB1	chr13:89873562-89874441	U2OS	brain:	n/a	n/a
2	KAP1	chr13:89873637-89874352	HEK293	kidney:	n/a	n/a

Variant related genes	Relation type
LINC01047	TF binding region

Extended variants
information (count: 123 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs1023806	0.80[CEU][hapmap];0.86[EUR][1000 genomes]
rs10459312	0.94[ASN][1000 genomes]
rs10459313	0.94[ASN][1000 genomes]
rs1157962	0.84[EUR][1000 genomes]
rs11843359	0.94[ASN][1000 genomes]
rs12877053	0.87[EUR][1000 genomes]
rs1330943	0.91[JPT][hapmap]
rs1334207	0.84[EUR][1000 genomes]
rs1373729	0.84[EUR][1000 genomes]
rs1412089	0.84[EUR][1000 genomes]
rs1412090	0.84[EUR][1000 genomes]
rs1412091	0.90[ASN][1000 genomes]
rs1412092	0.90[ASN][1000 genomes]
rs1412093	0.90[ASN][1000 genomes]
rs1413463	0.80[CEU][hapmap];0.87[EUR][1000 genomes]
rs1413464	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1413465	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1577150	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs170238	0.86[EUR][1000 genomes]
rs178345	0.87[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs182608	0.86[EUR][1000 genomes]
rs1854904	0.86[EUR][1000 genomes]
rs186391	0.83[CEU][hapmap];0.86[EUR][1000 genomes]
rs1867556	0.83[CEU][hapmap];0.86[EUR][1000 genomes]
rs1931486	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1981087	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2044348	0.80[CEU][hapmap]
rs2120871	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2120872	0.84[EUR][1000 genomes]
rs2166199	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2166202	0.84[EUR][1000 genomes]
rs221317	0.86[EUR][1000 genomes]
rs2348563	0.91[JPT][hapmap]
rs2781300	0.88[ASN][1000 genomes]
rs2781301	0.90[EUR][1000 genomes]
rs2781302	0.89[EUR][1000 genomes]
rs314527	0.83[ASN][1000 genomes]
rs314529	0.84[EUR][1000 genomes]
rs314533	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs314537	0.91[ASN][1000 genomes]
rs314538	0.91[ASN][1000 genomes]
rs314539	0.91[ASN][1000 genomes]
rs314540	0.86[EUR][1000 genomes]
rs314541	0.86[EUR][1000 genomes]
rs314542	0.86[EUR][1000 genomes]
rs314543	0.91[ASN][1000 genomes]
rs314544	0.84[EUR][1000 genomes]
rs314545	0.91[ASN][1000 genomes]
rs314546	0.91[ASN][1000 genomes]
rs314547	0.83[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs314548	0.84[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs314549	0.83[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs314553	0.82[CEU][hapmap];0.86[EUR][1000 genomes]
rs314554	0.87[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs314555	0.86[EUR][1000 genomes]
rs314556	0.86[EUR][1000 genomes]
rs314557	0.86[EUR][1000 genomes]
rs314558	0.86[EUR][1000 genomes]
rs314559	0.86[EUR][1000 genomes]
rs314560	0.91[ASN][1000 genomes]
rs314561	0.84[EUR][1000 genomes]
rs314564	0.90[EUR][1000 genomes]
rs314566	0.85[ASN][1000 genomes]
rs314567	0.86[EUR][1000 genomes]
rs314568	0.86[EUR][1000 genomes]
rs314569	0.86[ASN][1000 genomes]
rs314571	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs314577	0.83[ASN][1000 genomes]
rs364362	0.84[EUR][1000 genomes]
rs366604	0.86[ASN][1000 genomes]
rs367111	0.86[EUR][1000 genomes]
rs368814	0.86[EUR][1000 genomes]
rs375273	0.89[ASN][1000 genomes]
rs3803211	0.86[JPT][hapmap]
rs387330	0.88[ASN][1000 genomes]
rs392223	0.86[EUR][1000 genomes]
rs393327	0.86[EUR][1000 genomes]
rs393546	0.86[EUR][1000 genomes]
rs397192	0.89[EUR][1000 genomes]
rs411403	0.89[ASN][1000 genomes]
rs412365	0.84[EUR][1000 genomes]
rs415309	0.86[EUR][1000 genomes]
rs415859	0.88[ASN][1000 genomes]
rs421843	0.90[ASN][1000 genomes]
rs430857	0.90[ASN][1000 genomes]
rs432539	0.83[CEU][hapmap];0.86[EUR][1000 genomes]
rs454137	0.90[ASN][1000 genomes]
rs6492421	0.91[ASN][1000 genomes]
rs7320177	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7334436	0.84[EUR][1000 genomes]
rs7335501	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs734050	0.87[EUR][1000 genomes]
rs9301544	0.88[ASN][1000 genomes]
rs9301545	0.84[EUR][1000 genomes]
rs9301546	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9515542	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9515543	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9522473	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9555852	0.91[EUR][1000 genomes]
rs9555857	0.93[ASN][1000 genomes]
rs9555858	0.94[ASN][1000 genomes]
rs9560229	0.81[EUR][1000 genomes]
rs9560248	0.92[ASN][1000 genomes]
rs9560249	0.92[ASN][1000 genomes]
rs9560250	0.92[ASN][1000 genomes]
rs9560251	0.94[ASN][1000 genomes]
rs9560295	0.91[JPT][hapmap]
rs9588553	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9588556	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 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	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
10	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
11	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
12	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
13	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
14	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:89873400-89875000	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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