Variant report

Variant	rs4477399
Chromosome Location	chr11:26722523-26722524
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10767573	0.88[CEU][hapmap]
rs10835059	0.88[ASN][1000 genomes]
rs10835061	0.88[CEU][hapmap]
rs11029680	0.91[CHB][hapmap];0.89[GIH][hapmap];0.84[JPT][hapmap];0.90[ASN][1000 genomes]
rs11029687	0.88[CEU][hapmap]
rs12294769	0.91[ASW][hapmap];0.86[CHB][hapmap];0.84[GIH][hapmap];0.90[JPT][hapmap];0.93[MKK][hapmap];0.88[ASN][1000 genomes]
rs12574390	0.90[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12576268	1.00[CEU][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4322349	0.82[ASW][hapmap];1.00[CEU][hapmap];0.83[CHD][hapmap];0.94[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.94[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4923380	1.00[CEU][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044544	chr11:26506962-26967285	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv916187	chr11:26576875-27328603	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4477399	ACY3	trans	cerebellum	SCAN
rs4477399	CCDC34	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:26719400-26724800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr11:26719800-26724000	Weak transcription	Fetal Intestine Small	intestine
3	chr11:26720200-26723200	Weak transcription	Duodenum Mucosa	Duodenum
4	chr11:26720200-26724000	Weak transcription	Fetal Intestine Large	intestine
5	chr11:26721200-26723000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr11:26721200-26741200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr11:26722000-26722800	Enhancers	Rectal Mucosa Donor 31	rectum
8	chr11:26722200-26722800	Enhancers	Stomach Smooth Muscle	stomach
9	chr11:26722400-26723000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr11:26722400-26723000	Enhancers	Fetal Stomach	stomach
11	chr11:26722400-26723400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr11:26722400-26725200	Weak transcription	Rectal Smooth Muscle	rectum

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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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