Variant report

Variant	rs11732677
Chromosome Location	chr4:153100692-153100693
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11727188	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11733971	0.86[EUR][1000 genomes]
rs17361391	0.89[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56780740	0.86[EUR][1000 genomes]
rs6810646	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6858062	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6858503	0.82[CHB][hapmap]
rs72736219	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][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	nsv880341	chr4:152861685-153110256	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv931416	chr4:152877808-153440553	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv880774	chr4:153035743-153121818	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11732677	PRSS48	cis	parietal	SCAN
rs11732677	TRIM2	cis	cerebellum	SCAN
rs11732677	RP11-18H21.1	cis	Whole Blood	GTEx

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:153097000-153109000	Weak transcription	Right Atrium	heart
2	chr4:153100000-153104000	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr4:153100000-153104400	Weak transcription	Primary T cells from cord blood	blood
4	chr4:153100000-153104400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr4:153100000-153105800	Weak transcription	Thymus	Thymus

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