Variant report

Variant	rs2973402
Chromosome Location	chr5:89504012-89504013
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10035522	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2950029	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2973376	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2973401	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3096031	0.94[AFR][1000 genomes]
rs4916791	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57330995	1.00[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	nsv1021142	chr5:89102893-89897826	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv537804	chr5:89102893-89897826	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv917025	chr5:89208994-89855436	Enhancers Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
4	nsv432750	chr5:89410113-90137144	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv882362	chr5:89437963-89604380	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv830391	chr5:89456582-89641195	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv432751	chr5:89457044-90090444	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
8	nsv830393	chr5:89499644-89658493	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:89503200-89504600	Active TSS	HUES64 Cell Line	embryonic stem cell
2	chr5:89503600-89504600	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr5:89503600-89504600	Active TSS	H1 Cell Line	embryonic stem cell
4	chr5:89503600-89504600	Active TSS	H9 Cell Line	embryonic stem cell
5	chr5:89503600-89504600	Active TSS	HUES6 Cell Line	embryonic stem cell
6	chr5:89503600-89504600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
7	chr5:89503800-89504400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
8	chr5:89503800-89504600	Active TSS	HUES48 Cell Line	embryonic stem cell
9	chr5:89503800-89504600	Active TSS	iPS-15b Cell Line	embryonic stem cell
10	chr5:89503800-89504600	Active TSS	iPS-20b Cell Line	embryonic stem cell
11	chr5:89504000-89504400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr5:89504000-89504600	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr5:89504000-89504600	Active TSS	iPS-18 Cell Line	embryonic stem cell
14	chr5:89504000-89504600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr5:89504000-89504600	Active TSS	K562	blood

Quick Search:

Input of quick search could be:

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

what's new

Quick links