Variant report

Variant	rs10981912
Chromosome Location	chr9:116517302-116517303
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10759656	0.80[ASN][1000 genomes]
rs10981911	0.89[ASN][1000 genomes]
rs10981914	0.86[ASN][1000 genomes]
rs10981915	0.95[JPT][hapmap]
rs12335674	0.87[ASN][1000 genomes]
rs12345205	0.87[ASN][1000 genomes]
rs12346446	0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs1409381	0.80[ASN][1000 genomes]
rs4979281	0.95[JPT][hapmap]
rs7847036	0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs7866886	0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs913081	0.80[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430093	chr9:116330446-117325446	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10981912	C9orf29	cis	parietal	SCAN
rs10981912	ZNF618	cis	cerebellum	SCAN
rs10981912	C9orf91	cis	cerebellum	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116515800-116517800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
2	chr9:116516200-116517400	Enhancers	H1 Cell Line	embryonic stem cell
3	chr9:116516200-116517400	Weak transcription	Pancreas	Pancrea
4	chr9:116516200-116517600	Enhancers	Spleen	Spleen
5	chr9:116516200-116517800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr9:116516200-116518200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
7	chr9:116516400-116517400	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr9:116516400-116517600	Enhancers	H9 Cell Line	embryonic stem cell
9	chr9:116516400-116517600	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr9:116516400-116517800	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr9:116516400-116518000	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr9:116516400-116518600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:116516600-116517600	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr9:116516600-116517600	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr9:116516800-116518800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr9:116517200-116518000	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr9:116517200-116518000	Weak transcription	Ovary	ovary
18	chr9:116517200-116518600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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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

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