Variant report

Variant	rs16910240
Chromosome Location	chr9:98544975-98544976
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs7029315	1.00[CEU][hapmap];0.93[GIH][hapmap];0.90[TSI][hapmap];0.95[EUR][1000 genomes]
rs7047415	1.00[CEU][hapmap];0.93[GIH][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs7873723	0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893598	chr9:98508628-98645674	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv482884	chr9:98530027-98691937	Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16910240	PIP4K2B	trans	brain	seeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98535400-98550800	Weak transcription	Right Atrium	heart
2	chr9:98535600-98545800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:98536000-98546800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr9:98541400-98545800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr9:98541600-98545000	Weak transcription	Stomach Smooth Muscle	stomach
6	chr9:98541800-98545800	Weak transcription	HSMMtube	muscle
7	chr9:98541800-98545800	Weak transcription	NHLF	lung
8	chr9:98542000-98545000	Weak transcription	HSMM	muscle
9	chr9:98542000-98545200	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr9:98542000-98545800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr9:98543600-98545800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr9:98544800-98546800	Enhancers	HepG2	liver
13	chr9:98544800-98550400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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