Variant report

Variant	rs62557462
Chromosome Location	chr9:100153583-100153584
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:100149125..100152015-chr9:100152467..100154475,2	K562	blood:
2	chr9:100149125..100151047-chr9:100151218..100153967,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TSTD2-4	chr9:100153119-100154560	NONHSAT133504
2	lnc-TSTD2-4	chr9:100153118-100154996	NONHSAT133503
3	lnc-TSTD2-4	chr9:100153121-100154560	XLOC_007795

Extended variants
information (count: 108 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs1048451	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10817384	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10817491	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10817504	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10981367	0.81[EUR][1000 genomes]
rs10981444	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10981460	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10981688	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981701	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10981784	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10981800	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10981801	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1123379	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11581	0.93[EUR][1000 genomes]
rs12115447	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12115448	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12377538	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12378350	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12550923	0.84[EUR][1000 genomes]
rs12551740	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12551818	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12552101	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12552659	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12553155	0.89[EUR][1000 genomes]
rs12553213	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12553259	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12554363	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12555277	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13285567	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13286510	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13289134	0.81[EUR][1000 genomes]
rs13289813	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13292715	0.84[EUR][1000 genomes]
rs13300328	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13301045	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13301965	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1531440	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1564048	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1564050	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16919506	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16919656	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16919661	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16919671	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16919675	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2045729	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2045730	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2045731	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2279113	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2290933	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2306090	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2306092	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2306094	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2401384	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34135027	0.90[EUR][1000 genomes]
rs34183765	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34355647	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34476799	0.84[EUR][1000 genomes]
rs34564795	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34609282	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34616426	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34754033	0.88[EUR][1000 genomes]
rs34870571	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34905303	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34954690	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35066943	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35123877	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35534888	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35590659	0.81[EUR][1000 genomes]
rs35623544	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35737497	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35778461	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35778718	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35788892	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3747490	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3747491	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3747492	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3747495	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3747498	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3747499	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3747504	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3747506	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3747507	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3747510	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3747511	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3827484	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3827485	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3994560	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs41316960	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4742686	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4742688	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4743070	0.84[EUR][1000 genomes]
rs4743073	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4743082	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4743083	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4743085	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4743086	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62557460	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62557461	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62557463	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7020530	0.80[EUR][1000 genomes]
rs7038496	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7041222	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73565808	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7874652	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs898869	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs898870	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9696058	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036105	chr9:100131266-100171816	Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100149600-100154400	Weak transcription	Gastric	stomach
2	chr9:100149600-100161400	Weak transcription	Right Atrium	heart
3	chr9:100151600-100154000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr9:100151800-100154000	Weak transcription	HepG2	liver
5	chr9:100152000-100157800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr9:100153000-100159200	Weak transcription	GM12878-XiMat	blood

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