Human Gene STRN (uc010ezx.3)
  Description: Homo sapiens striatin, calmodulin binding protein (STRN), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr2:37,064,841-37,193,615 Size: 128,775 Total Exon Count: 17 Strand: -
Coding Region
   Position: hg19 chr2:37,076,599-37,193,606 Size: 117,008 Coding Exon Count: 17 

Page IndexSequence and LinksPrimersGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:37,064,841-37,193,615)mRNA (may differ from genome)Protein (743 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMalacardsMGI
OMIMPubMedTreefamUniProtKBWikipediaBioGrid CRISPR DB

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): STRN
CDC HuGE Published Literature: STRN

-  MalaCards Disease Associations
  MalaCards Gene Search: STRN
Diseases sorted by gene-association score: cerebral cavernous malformations 3 (7), central nervous system hemangioma (6), cerebral cavernous malformations-1 (5)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.91 RPKM in Brain - Spinal cord (cervical c-1)
Total median expression: 264.29 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
3' UTR -3080.7711758-0.262 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  Pfam Domains:
PF00400 - WD domain, G-beta repeat
PF08232 - Striatin family

SCOP Domains:
50952 - Soluble quinoprotein glucose dehydrogenase
50960 - TolB, C-terminal domain
63825 - YWTD domain
63829 - Calcium-dependent phosphotriesterase
69304 - Tricorn protease N-terminal domain
101898 - NHL repeat
50965 - Galactose oxidase, central domain
75011 - 3-carboxy-cis,cis-mucoante lactonizing enzyme
101908 - Putative isomerase YbhE
50969 - YVTN repeat-like/Quinoprotein amine dehydrogenase
50974 - Nitrous oxide reductase, N-terminal domain
50978 - WD40 repeat-like
50993 - Prolyl oligopeptidase, N-terminal domain
69322 - Tricorn protease domain 2
50998 - Quinoprotein alcohol dehydrogenase-like
51004 - C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
82171 - Dipeptidyl peptidase IV/CD26, N-terminal domain

ModBase Predicted Comparative 3D Structure on O43815-2
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  AK026934 - Homo sapiens cDNA: FLJ23281 fis, clone HEP07243, highly similar to HSSTRIA Homo sapiens mRNA for striatin.
AJ223814 - Homo sapiens mRNA for striatin.
BC106879 - Homo sapiens striatin, calmodulin binding protein, mRNA (cDNA clone MGC:125642 IMAGE:40027865), complete cds.
BC106878 - Homo sapiens striatin, calmodulin binding protein, mRNA (cDNA clone IMAGE:40027864), partial cds.
KJ901771 - Synthetic construct Homo sapiens clone ccsbBroadEn_11165 STRN gene, encodes complete protein.
AB590635 - Synthetic construct DNA, clone: pFN21AB5794, Homo sapiens STRN gene for striatin, calmodulin binding protein, without stop codon, in Flexi system.
AF085351 - Homo sapiens ELISC-1 mRNA, partial cds.
BC015406 - Homo sapiens striatin, calmodulin binding protein, mRNA (cDNA clone IMAGE:4391012).
JD291946 - Sequence 272970 from Patent EP1572962.
JD313905 - Sequence 294929 from Patent EP1572962.
JD232038 - Sequence 213062 from Patent EP1572962.
BC036416 - Homo sapiens striatin, calmodulin binding protein, mRNA (cDNA clone IMAGE:4795593), with apparent retained intron.
AK307836 - Homo sapiens cDNA, FLJ97784.

-  Other Names for This Gene
  Alternate Gene Symbols: BC106879, NM_003162, NP_003153, O43815-2
UCSC ID: uc010ezx.3
RefSeq Accession: NM_003162
Protein: O43815-2, splice isoform of O43815 CCDS: CCDS1784.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: BC106879.2
exon count: 17CDS single in 3' UTR: no RNA size: 2254
ORF size: 2232CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4575.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.