Human Gene CTNNAL1 (uc004bdo.1)
  Description: Homo sapiens catenin (cadherin-associated protein), alpha-like 1 (CTNNAL1), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr9:111,704,851-111,775,764 Size: 70,914 Total Exon Count: 19 Strand: -
Coding Region
   Position: hg19 chr9:111,705,049-111,775,722 Size: 70,674 Coding Exon Count: 19 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:111,704,851-111,775,764)mRNA (may differ from genome)Protein (734 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedTreefamUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CTNL1_HUMAN
DESCRIPTION: RecName: Full=Alpha-catulin; AltName: Full=Alpha-catenin-related protein; Short=ACRP; AltName: Full=Catenin alpha-like protein 1;
FUNCTION: May modulate the Rho pathway signaling by providing a scaffold for the Lbc Rho guanine nucleotide exchange factor (ARHGEF1).
SUBUNIT: Interacts with ARHGEF1.
SUBCELLULAR LOCATION: Cytoplasm, cytoskeleton. Cell membrane; Peripheral membrane protein.
TISSUE SPECIFICITY: Widely expressed. Expressed at lower level in neural tissues and at the highest level in the adrenal gland.
INDUCTION: Down-regulated in cancer pancreatic cells undergoing differentiation and apoptosis.
SIMILARITY: Belongs to the vinculin/alpha-catenin family.
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/ctnnal1/";

-  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): CTNNAL1
CDC HuGE Published Literature: CTNNAL1

-  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: 139.03 RPKM in Adrenal Gland
Total median expression: 749.57 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
5' UTR -18.6042-0.443 Picture PostScript Text
3' UTR -33.02198-0.167 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
  InterPro Domains: Graphical view of domain structure
IPR001033 - Alpha_catenin
IPR006077 - Vinculin/catenin

Pfam Domains:
PF01044 - Vinculin family

SCOP Domains:
47220 - alpha-catenin/vinculin

ModBase Predicted Comparative 3D Structure on Q9UBT7
FrontTopSide
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 orthologNo orthologGenome BrowserGenome BrowserGenome BrowserNo ortholog
Gene Details  Gene DetailsGene Details 
Gene Sorter  Gene SorterGene Sorter 
  EnsemblFlyBaseWormBase 
  Protein SequenceProtein SequenceProtein Sequence 
  AlignmentAlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0045296 cadherin binding
GO:0051015 actin filament binding

Biological Process:
GO:0007155 cell adhesion
GO:0007266 Rho protein signal transduction

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0005886 plasma membrane
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  AF135021 - Homo sapiens alpha2-catulin (CTNNAL1) mRNA, alternatively spliced, complete cds.
U97067 - Homo sapiens alpha-catenin-like protein mRNA, complete cds.
AK022834 - Homo sapiens cDNA FLJ12772 fis, clone NT2RP2001634, highly similar to Homo sapiens alpha-catenin-like protein mRNA.
LP895629 - Sequence 493 from Patent EP3253886.
AK223230 - Homo sapiens mRNA for catenin, alpha-like 1 variant, clone: STM02543.
AF030233 - Homo sapiens alpha-catenin-like protein (CTNNAL1) mRNA, complete cds.
AK022926 - Homo sapiens cDNA FLJ12864 fis, clone NT2RP2003604, highly similar to Alpha-catulin.
AL050016 - Homo sapiens mRNA; cDNA DKFZp564C1969 (from clone DKFZp564C1969).
AF080071 - Homo sapiens alpha-catenin-like protein mRNA, complete cds.
AK123916 - Homo sapiens cDNA FLJ41922 fis, clone PERIC2003001, moderately similar to Homo sapiens catenin (cadherin-associated protein), alpha-like 1 (CTNNAL1).
AK022539 - Homo sapiens cDNA FLJ12477 fis, clone NT2RM1001003, highly similar to Homo sapiens alpha-catenin-like protein (CTNNAL1) mRNA.
AF006070 - Homo sapiens alpha-catenin related protein (ACRP) mRNA, complete cds.
JD377249 - Sequence 358273 from Patent EP1572962.
BC117208 - Homo sapiens catenin (cadherin-associated protein), alpha-like 1, mRNA (cDNA clone MGC:150817 IMAGE:40125759), complete cds.
BC117234 - Homo sapiens catenin (cadherin-associated protein), alpha-like 1, mRNA (cDNA clone MGC:150843 IMAGE:40125785), complete cds.
AK314677 - Homo sapiens cDNA, FLJ95528, highly similar to Homo sapiens catenin (cadherin-associated protein), alpha-like 1 (CTNNAL1), mRNA.
AB451283 - Homo sapiens CTNNAL1 mRNA for alpha-catulin, complete cds, clone: FLJ08121AAAN.
HQ258655 - Synthetic construct Homo sapiens clone IMAGE:100072685 catenin (cadherin-associated protein), alpha-like 1 (CTNNAL1) gene, encodes complete protein.
AB451415 - Homo sapiens CTNNAL1 mRNA for alpha-catulin, partial cds, clone: FLJ08121AAAF.

-  Other Names for This Gene
  Alternate Gene Symbols: B5BU47, CTNL1_HUMAN, NM_003798, NP_003789, O76084, Q53FQ2, Q5JTQ7, Q5JTQ8, Q9UBT7, Q9Y401
UCSC ID: uc004bdo.1
RefSeq Accession: NM_003798
Protein: Q9UBT7 (aka CTNL1_HUMAN)
CCDS: CCDS69638.1, CCDS6775.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_003798.2
exon count: 19CDS single in 3' UTR: no RNA size: 2445
ORF size: 2205CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4610.00frame 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.