Variant report

Variant	rs62570967
Chromosome Location	chr9:15416960-15416961
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10961952	1.00[ASN][1000 genomes]
rs10961953	1.00[ASN][1000 genomes]
rs10962016	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12349544	1.00[ASN][1000 genomes]
rs62570966	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62570969	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62570970	0.88[EUR][1000 genomes]
rs62570971	0.88[EUR][1000 genomes]
rs62570972	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62570973	0.88[EUR][1000 genomes]
rs62570974	0.88[EUR][1000 genomes]
rs62570975	0.88[EUR][1000 genomes]
rs62570976	0.83[EUR][1000 genomes]
rs62573013	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62573015	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv1030287	chr9:15332709-15458001	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv831520	chr9:15404866-15444447	Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62570967	PSIP1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15416600-15417000	Enhancers	HepG2	liver
2	chr9:15416800-15417000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:15416800-15417000	Enhancers	H9 Cell Line	embryonic stem cell
4	chr9:15416800-15417000	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr9:15416800-15417000	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr9:15416800-15417000	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr9:15416800-15417000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr9:15416800-15417000	Enhancers	Esophagus	oesophagus
9	chr9:15416800-15417200	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr9:15416800-15418000	Enhancers	Placenta	Placenta
11	chr9:15416800-15418400	Enhancers	iPS-15b Cell Line	embryonic stem cell

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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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