Human Gene CABP5 (ENST00000293255.3_7) from GENCODE V47lift37
  Description: calcium binding protein 5 (from RefSeq NM_019855.5)
Gencode Transcript: ENST00000293255.3_7
Gencode Gene: ENSG00000105507.3_9
Transcript (Including UTRs)
   Position: hg19 chr19:48,532,640-48,547,336 Size: 14,697 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr19:48,533,814-48,547,179 Size: 13,366 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:48,532,640-48,547,336)mRNA (may differ from genome)Protein (173 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CABP5_HUMAN
DESCRIPTION: RecName: Full=Calcium-binding protein 5; Short=CaBP5;
FUNCTION: Inhibits calcium-dependent inactivation of L-type calcium channel and shifts voltage dependence of activation to more depolarized membrane potentials. Involved in the transmission of light signals (By similarity).
SUBUNIT: Interacts with CACNA1C (via C-terminal CDB motif) in a calcium-dependent manner (By similarity).
SUBCELLULAR LOCATION: Cytoplasm.
TISSUE SPECIFICITY: Retina.
SIMILARITY: Contains 4 EF-hand domains.

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: CABP5
Diseases sorted by gene-association score: amebiasis (2)

+  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: 0.39 RPKM in Whole Blood
Total median expression: 0.57 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 -47.70157-0.304 Picture PostScript Text
3' UTR -332.301174-0.283 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
IPR018248 - EF-hand
IPR011992 - EF-hand-like_dom
IPR018247 - EF_Hand_1_Ca_BS
IPR018249 - EF_HAND_2
IPR002048 - EF_hand_Ca-bd

Pfam Domains:
PF00036 - EF hand
PF13202 - EF hand
PF13405 - EF-hand domain
PF13499 - EF-hand domain pair
PF13833 - EF-hand domain pair

SCOP Domains:
63446 - Type I dockerin domain
47473 - EF-hand
46785 - "Winged helix" DNA-binding domain
56808 - Ribosomal protein L1

ModBase Predicted Comparative 3D Structure on Q9NP86
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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005509 calcium ion binding
GO:0005515 protein binding
GO:0046872 metal ion binding

Biological Process:
GO:0007165 signal transduction

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  LF384216 - JP 2014500723-A/191719: Polycomb-Associated Non-Coding RNAs.
LF366807 - JP 2014500723-A/174310: Polycomb-Associated Non-Coding RNAs.
AF169158 - Homo sapiens CaBP3 (CABP3) mRNA, complete cds.
AF169159 - Homo sapiens CaBP5 (CABP5) mRNA, complete cds.
JD046789 - Sequence 27813 from Patent EP1572962.
JD163660 - Sequence 144684 from Patent EP1572962.
JD225798 - Sequence 206822 from Patent EP1572962.
JD142914 - Sequence 123938 from Patent EP1572962.
BC126135 - Homo sapiens calcium binding protein 5, mRNA (cDNA clone MGC:161413 IMAGE:8991851), complete cds.
BC126133 - Homo sapiens calcium binding protein 5, mRNA (cDNA clone MGC:161411 IMAGE:8991849), complete cds.
JD445544 - Sequence 426568 from Patent EP1572962.
JD068082 - Sequence 49106 from Patent EP1572962.
JD038351 - Sequence 19375 from Patent EP1572962.
JD445543 - Sequence 426567 from Patent EP1572962.
JD335076 - Sequence 316100 from Patent EP1572962.
JD335603 - Sequence 316627 from Patent EP1572962.
JD437069 - Sequence 418093 from Patent EP1572962.
JD495021 - Sequence 476045 from Patent EP1572962.
HQ258076 - Synthetic construct Homo sapiens clone IMAGE:100072385 calcium binding protein 5 (CABP5) gene, encodes complete protein.
KJ894327 - Synthetic construct Homo sapiens clone ccsbBroadEn_03721 CABP5 gene, encodes complete protein.
LF366805 - JP 2014500723-A/174308: Polycomb-Associated Non-Coding RNAs.
JD441959 - Sequence 422983 from Patent EP1572962.
JD341763 - Sequence 322787 from Patent EP1572962.
MA619793 - JP 2018138019-A/191719: Polycomb-Associated Non-Coding RNAs.
MA602384 - JP 2018138019-A/174310: Polycomb-Associated Non-Coding RNAs.
MA602382 - JP 2018138019-A/174308: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A0AUY4, CABP3, CABP5_HUMAN, ENST00000293255.1, ENST00000293255.2, NM_019855, Q9NP86, uc317ldc.1, uc317ldc.2
UCSC ID: ENST00000293255.3_7
RefSeq Accession: NM_019855.5
Protein: Q9NP86 (aka CABP5_HUMAN or CAB5_HUMAN)

-  Gene Model Information
  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.