Variant report

Variant	rs337791
Chromosome Location	chr19:40600021-40600022
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:40593483..40595649-chr19:40598012..40600965,2	K562	blood:
2	chr19:40595751..40597908-chr19:40599874..40602107,2	K562	blood:
3	chr19:40598367..40600693-chr19:40603198..40605174,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF546-3	chr19:40596661-40600313	ENSG00000269296.1

Variant related genes	Relation type
ENSG00000269296	Chromatin interaction
ENSG00000269749	Chromatin interaction
ENSG00000197782	Chromatin interaction

Extended variants
information (count: 119 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:115)

rs_ID	r²[population]
rs1007628	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10401980	0.88[ASN][1000 genomes]
rs1327185	0.99[ASN][1000 genomes]
rs1327187	0.93[ASN][1000 genomes]
rs1327188	0.98[ASN][1000 genomes]
rs1327189	0.96[ASN][1000 genomes]
rs1327190	0.96[ASN][1000 genomes]
rs1327191	0.96[ASN][1000 genomes]
rs1327192	0.96[ASN][1000 genomes]
rs1327193	0.96[ASN][1000 genomes]
rs16974093	0.89[ASN][1000 genomes]
rs170901	0.89[EUR][1000 genomes]
rs17797100	0.95[ASN][1000 genomes]
rs1854098	0.99[ASN][1000 genomes]
rs1926931	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1926932	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1926933	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1926934	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1998931	0.96[ASN][1000 genomes]
rs24135	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs24136	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs24137	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2569639	0.96[ASN][1000 genomes]
rs2569640	0.96[ASN][1000 genomes]
rs2569641	0.96[ASN][1000 genomes]
rs2569642	0.96[ASN][1000 genomes]
rs2569643	0.99[ASN][1000 genomes]
rs2569644	0.99[ASN][1000 genomes]
rs2569645	0.99[ASN][1000 genomes]
rs2569648	0.99[ASN][1000 genomes]
rs2569649	0.99[ASN][1000 genomes]
rs2569650	0.92[ASN][1000 genomes]
rs2569651	0.93[ASN][1000 genomes]
rs2767592	0.99[ASN][1000 genomes]
rs2767593	0.99[ASN][1000 genomes]
rs2767594	0.98[ASN][1000 genomes]
rs2767595	0.99[ASN][1000 genomes]
rs2767596	0.99[ASN][1000 genomes]
rs2767597	0.99[ASN][1000 genomes]
rs2767598	0.99[ASN][1000 genomes]
rs2767601	0.95[ASN][1000 genomes]
rs2767603	0.96[ASN][1000 genomes]
rs2767604	0.99[ASN][1000 genomes]
rs2767605	0.99[ASN][1000 genomes]
rs2767606	0.99[ASN][1000 genomes]
rs2767607	0.99[ASN][1000 genomes]
rs2767608	0.99[ASN][1000 genomes]
rs2767609	0.99[ASN][1000 genomes]
rs2819955	0.99[ASN][1000 genomes]
rs2819958	0.96[ASN][1000 genomes]
rs28629274	0.89[ASN][1000 genomes]
rs28890790	0.90[ASN][1000 genomes]
rs2915972	0.96[ASN][1000 genomes]
rs2970102	0.99[ASN][1000 genomes]
rs2986595	0.84[ASN][1000 genomes]
rs337784	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs337785	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs337786	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs337787	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs337788	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs337789	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs337790	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs337792	0.99[ASN][1000 genomes]
rs337793	0.99[ASN][1000 genomes]
rs337794	0.99[ASN][1000 genomes]
rs392958	0.89[EUR][1000 genomes]
rs4577216	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs57880771	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57900299	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58003479	0.89[ASN][1000 genomes]
rs58395013	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58440570	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58899236	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59502139	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59925663	0.80[EUR][1000 genomes]
rs60449727	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7257747	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7258202	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7258506	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7258627	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7258778	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7258974	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7259855	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7260378	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73547676	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73547677	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73549810	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73549811	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73549820	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73549821	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73549825	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs73549826	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73549829	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73549833	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73549835	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73549836	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73549877	0.98[ASN][1000 genomes]
rs73551642	0.96[ASN][1000 genomes]
rs73551661	0.95[ASN][1000 genomes]
rs73551662	0.95[ASN][1000 genomes]
rs73551663	0.95[ASN][1000 genomes]
rs73551668	0.95[ASN][1000 genomes]
rs73551674	0.95[ASN][1000 genomes]
rs73551675	0.95[ASN][1000 genomes]
rs73551681	0.95[ASN][1000 genomes]
rs73551683	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73551685	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73551687	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73551688	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73551689	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73551691	0.95[ASN][1000 genomes]
rs73551695	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73553603	0.83[ASN][1000 genomes]
rs8103294	0.90[ASN][1000 genomes]
rs8106032	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[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	nsv917321	chr19:40403192-40694875	Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	esv1826663	chr19:40529943-41023601	Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
3	nsv2488	chr19:40593818-40631406	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv911697	chr19:40599603-40711333	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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