Variant report

Variant	rs73079467
Chromosome Location	chr5:29153656-29153657
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:0)
LncRNA
region (count:9)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

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	chr5:29153566-29153802	ENSG00000259786.1
5	lnc-CDH6-2	chr5:29153566-29153727	ENSG00000259786.2
6	lnc-CDH6-2	chr5:29153565-29153916	NONHSAT100838
7	lnc-CDH6-2	chr5:29153566-29153840	NONHSAT100842
8	lnc-CDH6-2	chr5:29153566-29153840	NONHSAT100843
9	lnc-CDH6-2	chr5:29153643-29153840	ENSG00000259786.2

No data

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1158782	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11954251	1.00[ASN][1000 genomes]
rs11959091	1.00[ASN][1000 genomes]
rs160307	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs160311	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16898735	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16898749	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16898753	1.00[ASN][1000 genomes]
rs177934	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17839358	1.00[EUR][1000 genomes]
rs4115403	1.00[ASN][1000 genomes]
rs56671843	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57319851	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57958129	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58162291	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58550915	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58789672	1.00[EUR][1000 genomes]
rs73060390	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73060398	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73062309	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73062332	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73062350	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73062358	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73062368	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079453	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079454	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079458	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079472	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs824328	1.00[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:9 , 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	chr5:29153400-29153800	Enhancers	H1 Cell Line	embryonic stem cell
6	chr5:29153400-29153800	Enhancers	H9 Cell Line	embryonic stem cell
7	chr5:29153400-29153800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr5:29153600-29153800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr5:29153600-29157600	Weak transcription	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links