Mouse Gene Car5b (ENSMUST00000033739.4) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus carbonic anhydrase 5b, mitochondrial (Car5b), mRNA. (from RefSeq NM_181315)
Gencode Transcript: ENSMUST00000033739.4
Gencode Gene: ENSMUSG00000031373.4
Transcript (Including UTRs)
   Position: mm10 chrX:163,976,822-164,027,997 Size: 51,176 Total Exon Count: 8 Strand: -
Coding Region
   Position: mm10 chrX:163,979,191-164,014,944 Size: 35,754 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:163,976,822-164,027,997)mRNA (may differ from genome)Protein (317 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: CAH5B_MOUSE
DESCRIPTION: RecName: Full=Carbonic anhydrase 5B, mitochondrial; EC=4.2.1.1; AltName: Full=Carbonate dehydratase VB; AltName: Full=Carbonic anhydrase VB; Short=CA-VB; Flags: Precursor;
FUNCTION: Reversible hydration of carbon dioxide.
CATALYTIC ACTIVITY: H(2)CO(3) = CO(2) + H(2)O.
COFACTOR: Zinc (By similarity).
SUBCELLULAR LOCATION: Mitochondrion.
SIMILARITY: Belongs to the alpha-carbonic anhydrase family.

-  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


-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -37.70113-0.334 Picture PostScript Text
3' UTR -822.302369-0.347 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
IPR018437 - CA-V_mt
IPR001148 - Carbonic_anhydrase_a
IPR023561 - Carbonic_anhydrase_a-class
IPR018338 - Carbonic_anhydrase_a-class_CS

Pfam Domains:
PF00194 - Eukaryotic-type carbonic anhydrase

SCOP Domains:
51069 - Carbonic anhydrase

ModBase Predicted Comparative 3D Structure on Q9QZA0
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-  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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
 RGDEnsembl   
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004089 carbonate dehydratase activity
GO:0008270 zinc ion binding
GO:0016829 lyase activity
GO:0046872 metal ion binding

Cellular Component:
GO:0005739 mitochondrion


-  Descriptions from all associated GenBank mRNAs
  AK041253 - Mus musculus adult male aorta and vein cDNA, RIKEN full-length enriched library, clone:A530094K10 product:unclassifiable, full insert sequence.
AK163076 - Mus musculus adult male aorta and vein cDNA, RIKEN full-length enriched library, clone:A530029F09 product:unclassifiable, full insert sequence.
AK020181 - Mus musculus adult male adrenal gland cDNA, RIKEN full-length enriched library, clone:7330410H16 product:unclassifiable, full insert sequence.
AK047984 - Mus musculus 16 days embryo head cDNA, RIKEN full-length enriched library, clone:C130026L13 product:unclassifiable, full insert sequence.
BC034413 - Mus musculus carbonic anhydrase 5b, mitochondrial, mRNA (cDNA clone MGC:35938 IMAGE:4221296), complete cds.
AF192978 - Mus musculus carbonic anhydrase VB mRNA, complete cds; nuclear gene for mitochondrial product.
AK085670 - Mus musculus 10 days lactation, adult female mammary gland cDNA, RIKEN full-length enriched library, clone:D730005F19 product:carbonic anhydrase 5b, mitochondrial, full insert sequence.
AK046691 - Mus musculus 4 days neonate male adipose cDNA, RIKEN full-length enriched library, clone:B430312O10 product:carbonic anhydrase 5b, mitochondrial, full insert sequence.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu00910 - Nitrogen metabolism

Reactome (by CSHL, EBI, and GO)

Protein Q9QZA0 (Reactome details) participates in the following event(s):

R-MMU-1475028 Carbonic anhydrase dehydrates bicarbonate (mitochondria)
R-MMU-1475032 Carbonic anhydrase hydrates carbon dioxide (mitochondria)
R-MMU-1475029 Reversible hydration of carbon dioxide
R-MMU-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: Ca5b, CAH5B_MOUSE, NM_181315, Q8C3J9, Q8K014, Q9QZA0, uc009uvb.1, uc009uvb.2, uc009uvb.3
UCSC ID: uc009uvb.3
RefSeq Accession: NM_181315
Protein: Q9QZA0 (aka CAH5B_MOUSE or CA5B_MOUSE)
CCDS: CCDS30515.1

-  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.