Variant report

Variant	rs2150624
Chromosome Location	chr9:96776609-96776610
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10122334	0.82[MKK][hapmap]
rs10739968	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];0.81[TSI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10739969	0.82[MKK][hapmap]
rs1418251	0.82[MKK][hapmap]
rs1756962	0.84[ASN][1000 genomes]
rs1819445	1.00[ASN][1000 genomes]
rs1890383	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1933671	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4744316	0.82[MKK][hapmap]

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	nsv893589	chr9:96624645-96884544	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2150624	C10orf79	trans	cerebellum	SCAN
rs2150624	CKS2	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96773800-96781800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr9:96774000-96776800	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr9:96774000-96776800	Weak transcription	HSMMtube	muscle
4	chr9:96774000-96777400	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr9:96774200-96779400	Weak transcription	Fetal Stomach	stomach
6	chr9:96774600-96776800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr9:96775200-96780000	Weak transcription	Fetal Lung	lung
8	chr9:96776000-96777000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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