Human Gene CA4 (ENST00000300900.9_4) from GENCODE V47lift37
  Description: carbonic anhydrase 4, transcript variant 1 (from RefSeq NM_000717.5)
Gencode Transcript: ENST00000300900.9_4
Gencode Gene: ENSG00000167434.10_11
Transcript (Including UTRs)
   Position: hg19 chr17:58,227,334-58,236,907 Size: 9,574 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr17:58,227,396-58,236,785 Size: 9,390 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviewsModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:58,227,334-58,236,907)mRNA (may differ from genome)Protein (312 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CAH4_HUMAN
DESCRIPTION: RecName: Full=Carbonic anhydrase 4; EC=4.2.1.1; AltName: Full=Carbonate dehydratase IV; AltName: Full=Carbonic anhydrase IV; Short=CA-IV; Flags: Precursor;
FUNCTION: Reversible hydration of carbon dioxide. May stimulate the sodium/bicarbonate transporter activity of SLC4A4 that acts in pH homeostasis. It is essential for acid overload removal from the retina and retina epithelium, and acid release in the choriocapillaris in the choroid.
CATALYTIC ACTIVITY: H(2)CO(3) = CO(2) + H(2)O.
COFACTOR: Zinc.
ENZYME REGULATION: Activated by histamine, L-adrenaline, D- phenylalanine, L- and D-histidine. Inhibited by coumarins, saccharin, sulfonamide derivatives such as acetazolamide and Foscarnet (phosphonoformate trisodium salt).
BIOPHYSICOCHEMICAL PROPERTIES: Kinetic parameters: KM=21.5 mM for CO(2);
SUBUNIT: Interacts with SLC4A4.
SUBCELLULAR LOCATION: Cell membrane; Lipid-anchor, GPI-anchor.
TISSUE SPECIFICITY: Expressed in the endothelium of the choriocapillaris in eyes (at protein level). Not expressed in the retinal epithelium at detectable levels.
DISEASE: Defects in CA4 are the cause of retinitis pigmentosa type 17 (RP17) [MIM:600852]. RP leads to degeneration of retinal photoreceptor cells. Patients typically have night vision blindness and loss of midperipheral visual field. As their condition progresses, they lose their far peripheral visual field and eventually central vision as well. RP17 inheritance is autosomal dominant. Note=Defective acid overload removal from retina and retinal epithelium, due to mutant CA4, is responsible for photoreceptor degeneration, indicating that impaired pH homeostasis is the most likely cause underlying the RP17 phenotype.
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


-  MalaCards Disease Associations
  MalaCards Gene Search: CA4
Diseases sorted by gene-association score: retinitis pigmentosa 17* (1257), ca4-related retinitis pigmentosa* (100), retinitis pigmentosa* (71), herpangina (17), liver rhabdomyosarcoma (16), liver sarcoma (8), leber congenital amaurosis 4 (7), proximal renal tubular acidosis (7), multiple personality disorder (6), occlusion precerebral artery (6), hepatic infarction (5), epilepsy, familial temporal lobe, 3 (5), 3-methylglutaconic aciduria, type iv (5), carotid artery occlusion (4)
* = Manually curated disease association

-  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: 43.12 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 354.47 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 -19.8062-0.319 Picture PostScript Text
3' UTR -31.00122-0.254 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
IPR018343 - Carbonic_anhydrase_CA4

Pfam Domains:
PF00194 - Eukaryotic-type carbonic anhydrase

SCOP Domains:
51069 - Carbonic anhydrase

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1ZNC - X-ray MuPIT 3F7B - X-ray MuPIT 3F7U - X-ray MuPIT 3FW3 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P22748
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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004089 carbonate dehydratase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016829 lyase activity
GO:0046872 metal ion binding

Biological Process:
GO:0015701 bicarbonate transport

Cellular Component:
GO:0005791 rough endoplasmic reticulum
GO:0005793 endoplasmic reticulum-Golgi intermediate compartment
GO:0005794 Golgi apparatus
GO:0005802 trans-Golgi network
GO:0005886 plasma membrane
GO:0009986 cell surface
GO:0016020 membrane
GO:0016324 apical plasma membrane
GO:0030658 transport vesicle membrane
GO:0030667 secretory granule membrane
GO:0031225 anchored component of membrane
GO:0031362 anchored component of external side of plasma membrane
GO:0031526 brush border membrane
GO:0046658 anchored component of plasma membrane
GO:0048471 perinuclear region of cytoplasm
GO:0070062 extracellular exosome
GO:0016323 basolateral plasma membrane


-  Descriptions from all associated GenBank mRNAs
  BC057792 - Homo sapiens carbonic anhydrase IV, mRNA (cDNA clone MGC:71638 IMAGE:30331755), complete cds.
LP895344 - Sequence 208 from Patent EP3253886.
AK289715 - Homo sapiens cDNA FLJ76600 complete cds, highly similar to Homo sapiens carbonic anhydrase IV (CA4), mRNA.
AK298710 - Homo sapiens cDNA FLJ52015 complete cds, moderately similar to Carbonic anhydrase 4 precursor (EC 4.2.1.1).
BC069649 - Homo sapiens carbonic anhydrase IV, mRNA (cDNA clone MGC:97195 IMAGE:7262441), complete cds.
M83670 - Human carbonic anhydrase IV mRNA, complete cds.
JD339335 - Sequence 320359 from Patent EP1572962.
BC074768 - Homo sapiens carbonic anhydrase IV, mRNA (cDNA clone MGC:103808 IMAGE:30915189), complete cds.
CU691238 - Synthetic construct Homo sapiens gateway clone IMAGE:100020823 5' read CA4 mRNA.
HQ448032 - Synthetic construct Homo sapiens clone IMAGE:100071407; CCSB010783_02 carbonic anhydrase IV (CA4) gene, encodes complete protein.
KJ890805 - Synthetic construct Homo sapiens clone ccsbBroadEn_00199 CA4 gene, encodes complete protein.
KR710960 - Synthetic construct Homo sapiens clone CCSBHm_00018393 CA4 (CA4) mRNA, encodes complete protein.
KR710961 - Synthetic construct Homo sapiens clone CCSBHm_00018394 CA4 (CA4) mRNA, encodes complete protein.
KR710962 - Synthetic construct Homo sapiens clone CCSBHm_00018395 CA4 (CA4) mRNA, encodes complete protein.
CR541766 - Homo sapiens full open reading frame cDNA clone RZPDo834A0430D for gene CA4, carbonic anhydrase IV; complete cds, incl. stopcodon.
JD194063 - Sequence 175087 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P22748 (Reactome details) participates in the following event(s):

R-HSA-1237047 Carbonic anhydrase IV hydrates carbon dioxide to bicarbonate and a proton
R-HSA-1237059 Carbonic anhydrase IV dehydrates bicarbonate to water and carbon dioxide
R-HSA-1475017 Carbonic anhydrase dehydrates bicarbonate (plasma membrane)
R-HSA-1475025 Carbonic anhydrase hydrates carbon dioxide (plasma membrane)
R-HSA-1237044 Erythrocytes take up carbon dioxide and release oxygen
R-HSA-1247673 Erythrocytes take up oxygen and release carbon dioxide
R-HSA-1475029 Reversible hydration of carbon dioxide
R-HSA-1480926 O2/CO2 exchange in erythrocytes
R-HSA-1430728 Metabolism
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: B4DQA4, CA4 , CAH4_HUMAN, ENST00000300900.1, ENST00000300900.2, ENST00000300900.3, ENST00000300900.4, ENST00000300900.5, ENST00000300900.6, ENST00000300900.7, ENST00000300900.8, NM_000717, P22748, Q6FHI7, uc317mro.1, uc317mro.2
UCSC ID: ENST00000300900.9_4
RefSeq Accession: NM_000717.5
Protein: P22748 (aka CAH4_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene CA4:
rp-overview (Nonsyndromic Retinitis Pigmentosa Overview)

-  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.