Variant report

Variant	rs2291051
Chromosome Location	chr5:29153840-29153841
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CDH6-2	chr5:29153566-29153916	XLOC_004325
2	lnc-CDH6-2	chr5:29153566-29153907	XLOC_004325
3	lnc-CDH6-2	chr5:29153566-29153907	XLOC_004325
4	lnc-CDH6-2	chr5:29153565-29153916	NONHSAT100838
5	lnc-CDH6-2	chr5:29153566-29153840	NONHSAT100842
6	lnc-CDH6-2	chr5:29153566-29153840	NONHSAT100843
7	lnc-CDH6-2	chr5:29153643-29153840	ENSG00000259786.2

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10434568	0.94[ASN][1000 genomes]
rs12189263	0.97[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs13158935	0.97[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs13159321	0.97[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs13172353	0.89[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs13183681	0.89[ASN][1000 genomes]
rs160309	0.93[ASN][1000 genomes]
rs160312	0.93[ASN][1000 genomes]
rs160313	0.93[ASN][1000 genomes]
rs16898721	0.95[ASN][1000 genomes]
rs193967	0.92[ASN][1000 genomes]
rs1982930	0.93[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs2047326	0.92[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs2220602	0.93[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2291050	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs251061	0.94[ASN][1000 genomes]
rs309675	0.93[ASN][1000 genomes]
rs309678	0.93[ASN][1000 genomes]
rs34629326	0.97[ASN][1000 genomes]
rs62352763	0.95[ASN][1000 genomes]
rs62352798	0.98[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs62352854	0.89[ASN][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	nsv1023990	chr5:28917253-29220447	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	esv3528360	chr5:29069255-29548659	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	esv3528361	chr5:29069255-29548659	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	nsv1022253	chr5:29076460-29195987	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
5	nsv1016603	chr5:29102713-29843965	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
6	nsv537712	chr5:29102713-29843965	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
7	nsv1030526	chr5:29125802-29204186	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
8	nsv964827	chr5:29138557-29198352	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:29151400-29157600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr5:29151600-29157600	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr5:29152800-29154000	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr5:29153000-29154200	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr5:29153600-29157600	Weak transcription	HUES64 Cell Line	embryonic stem cell

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