Variant report

Variant	rs17160628
Chromosome Location	chr5:107159013-107159014
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]
rs10515379	0.86[EUR][1000 genomes]
rs34110285	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3909359	0.81[ASN][1000 genomes]
rs3909360	0.81[ASN][1000 genomes]
rs3909361	0.87[ASN][1000 genomes]
rs4099186	0.84[CHB][hapmap];0.85[JPT][hapmap]
rs4099188	0.84[CHB][hapmap];0.85[JPT][hapmap]
rs4957544	0.85[ASN][1000 genomes]
rs4957723	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[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	nsv830440	chr5:107074116-107278905	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17160628	FBXL17	cis	parietal	SCAN
rs17160628	TMEM232	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107144400-107167600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr5:107153600-107162000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr5:107156200-107161800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr5:107156800-107159600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr5:107157200-107166600	Weak transcription	NHDF-Ad	bronchial
6	chr5:107158400-107161200	Weak transcription	ES-UCSF4 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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