Human Gene CA13 (uc003ydg.2)
  Description: Homo sapiens carbonic anhydrase XIII (CA13), mRNA.
RefSeq Summary (NM_198584): Carbonic anhydrases (CAs) are a family of zinc metalloenzymes. For background information on the CA family, see MIM 114800.[supplied by OMIM, Mar 2008].
Transcript (Including UTRs)
   Position: hg19 chr8:86,157,716-86,196,302 Size: 38,587 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr8:86,158,058-86,193,578 Size: 35,521 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:86,157,716-86,196,302)mRNA (may differ from genome)Protein (262 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeTreefamUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CAH13_HUMAN
DESCRIPTION: RecName: Full=Carbonic anhydrase 13; EC=4.2.1.1; AltName: Full=Carbonate dehydratase XIII; AltName: Full=Carbonic anhydrase XIII; Short=CA-XIII;
FUNCTION: Reversible hydration of carbon dioxide.
CATALYTIC ACTIVITY: H(2)CO(3) = CO(2) + H(2)O.
COFACTOR: Zinc (By similarity).
ENZYME REGULATION: Inhibited by acetazolamide.
BIOPHYSICOCHEMICAL PROPERTIES: Kinetic parameters: KM=13.8 mM for CO(2);
TISSUE SPECIFICITY: Expressed in thymus, small intestine, spleen, prostate, ovary, colon and testis.
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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 5.31 RPKM in Small Intestine - Terminal Ileum
Total median expression: 62.88 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 -125.68342-0.367 Picture PostScript Text
3' UTR -731.912724-0.269 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
IPR001148 - Carbonic_anhydrase_a
IPR023561 - Carbonic_anhydrase_a-class
IPR018338 - Carbonic_anhydrase_a-class_CS
IPR018443 - Carbonic_anhydrase_CA13

Pfam Domains:
PF00194 - Eukaryotic-type carbonic anhydrase

SCOP Domains:
51069 - Carbonic anhydrase

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3CZV - X-ray MuPIT 3D0N - X-ray MuPIT 3DA2 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q8N1Q1
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 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

Biological Process:
GO:0015701 bicarbonate transport

Cellular Component:
GO:0005829 cytosol
GO:0043209 myelin sheath
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  AK093753 - Homo sapiens cDNA FLJ36434 fis, clone THYMU2012002.
BC052602 - Homo sapiens carbonic anhydrase XIII, mRNA (cDNA clone MGC:59868 IMAGE:6083105), complete cds.
AK095314 - Homo sapiens cDNA FLJ37995 fis, clone CTONG2011825, moderately similar to CARBONIC ANHYDRASE (EC 4.2.1.1).
CU690924 - Synthetic construct Homo sapiens gateway clone IMAGE:100022442 5' read CA13 mRNA.
HQ447655 - Synthetic construct Homo sapiens clone IMAGE:100071001; CCSB013684_01 carbonic anhydrase XIII (CA13) gene, encodes complete protein.
KJ900681 - Synthetic construct Homo sapiens clone ccsbBroadEn_10075 CA13 gene, encodes complete protein.
JD519103 - Sequence 500127 from Patent EP1572962.
JD409252 - Sequence 390276 from Patent EP1572962.
JD489003 - Sequence 470027 from Patent EP1572962.
JD255190 - Sequence 236214 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa00910 - Nitrogen metabolism

Reactome (by CSHL, EBI, and GO)

Protein Q8N1Q1 (Reactome details) participates in the following event(s):

R-HSA-1475022 Carbonic anhydrase dehydrates bicarbonate (cytosol)
R-HSA-1475026 Carbonic anhydrase hydrates carbon dioxide (cytosol)
R-HSA-1475029 Reversible hydration of carbon dioxide
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: CAH13_HUMAN, NM_198584, NP_940986, Q8N1Q1
UCSC ID: uc003ydg.2
RefSeq Accession: NM_198584
Protein: Q8N1Q1 (aka CAH13_HUMAN or CAHD_HUMAN)
CCDS: CCDS6236.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_198584.2
exon count: 7CDS single in 3' UTR: no RNA size: 3855
ORF size: 789CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1778.00frame 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.