Variant report

Variant	rs73980828
Chromosome Location	chr2:187027793-187027794
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZSWIM2-10	chr2:187027676-187027972	NONHSAT075988

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10048680	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs1021279	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs1038587	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10931219	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs12151628	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12151700	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13020131	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs1386515	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs1487360	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs16827526	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16827529	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17332573	0.88[AMR][1000 genomes]
rs1948103	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs1948104	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2046590	0.84[AMR][1000 genomes]
rs2046593	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2066971	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2171375	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2200590	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2370507	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs4384739	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4622676	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56341233	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56660382	0.85[ASN][1000 genomes]
rs58438183	0.89[ASN][1000 genomes]
rs60029175	0.89[ASN][1000 genomes]
rs6717680	0.88[AMR][1000 genomes]
rs6747595	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs725727	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs725728	0.86[AMR][1000 genomes]
rs73033500	0.80[ASN][1000 genomes]
rs73979271	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73979274	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73980822	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73980830	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73980878	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7564638	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7567924	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs7599104	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs901613	0.86[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875545	chr2:186566024-187280164	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv817325	chr2:186625679-187200841	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv868949	chr2:186657142-187327560	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv1002243	chr2:186692815-187150225	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv536077	chr2:186692815-187150225	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv932296	chr2:186737443-187265790	Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv875548	chr2:186798249-187164657	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv1003369	chr2:186980675-187133740	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:187025000-187049800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr2:187027600-187028000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr2:187027600-187028000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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