Variant report

Variant	rs17155006
Chromosome Location	chr7:107757843-107757844
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10953559	0.84[AFR][1000 genomes]
rs17155003	0.82[YRI][hapmap]
rs367538	0.81[CEU][hapmap]
rs369505	0.92[CEU][hapmap]
rs369508	0.91[CEU][hapmap]
rs377007	0.92[CEU][hapmap]
rs378641	0.81[CEU][hapmap]
rs379821	0.92[CEU][hapmap]
rs387981	0.80[CEU][hapmap]
rs401066	0.92[CEU][hapmap]
rs402264	0.92[CEU][hapmap]
rs403731	0.85[CEU][hapmap]
rs405239	0.85[CEU][hapmap]
rs409815	0.85[CEU][hapmap]
rs410286	0.92[CEU][hapmap]
rs413412	0.88[CEU][hapmap]
rs419031	0.92[CEU][hapmap]
rs420753	0.92[CEU][hapmap]
rs424978	0.81[CEU][hapmap]
rs429252	0.92[CEU][hapmap]
rs430995	0.81[CEU][hapmap]
rs433534	0.81[CEU][hapmap]
rs435125	0.92[CEU][hapmap]
rs435522	0.92[CEU][hapmap]
rs436573	0.84[CEU][hapmap]
rs448742	0.81[CEU][hapmap]
rs6952769	0.84[AFR][1000 genomes]
rs7783213	0.82[YRI][hapmap]
rs7784634	0.83[YRI][hapmap]
rs94604	0.81[CEU][hapmap]
rs985152	0.92[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033979	chr7:107003734-107877761	Strong transcription Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	esv3348839	chr7:107377311-108286538	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
3	nsv949344	chr7:107396502-107987085	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv831089	chr7:107687618-107877240	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs17155006	COG5	cis	cerebellum	SCAN
rs17155006	DOCK4	cis	cerebellum	SCAN
rs17155006	COG5	cis	parietal	SCAN
rs17155006	LHFPL3	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:107745000-107762600	Weak transcription	Fetal Lung	lung
2	chr7:107747800-107760800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr7:107755400-107761000	Weak transcription	NHLF	lung
4	chr7:107757000-107758200	Enhancers	hESC Derived CD184+ Endoderm 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