Mouse Gene Pax8 (ENSMUST00000028355.10) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus paired box 8 (Pax8), mRNA. (from RefSeq NM_011040)
RefSeq Summary (NM_011040): This gene encodes a member of a family of transcription factors that contain a characteristic N-terminal paired DNA-binding domain. The encoded protein is important for proper differentiation of the thyroid and the kidney. Alternatively spliced transcript variants of this gene have been described, but their full-length nature is not known. [provided by RefSeq, Mar 2013].
Gencode Transcript: ENSMUST00000028355.10
Gencode Gene: ENSMUSG00000026976.15
Transcript (Including UTRs)
   Position: mm10 chr2:24,420,560-24,475,599 Size: 55,040 Total Exon Count: 12 Strand: -
Coding Region
   Position: mm10 chr2:24,421,548-24,475,097 Size: 53,550 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsCTDRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-20

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:24,420,560-24,475,599)mRNA (may differ from genome)Protein (457 aa)
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-  Comments and Description Text from UniProtKB
  ID: PAX8_MOUSE
DESCRIPTION: RecName: Full=Paired box protein Pax-8;
FUNCTION: Thought to encode a transcription factor. It may have a role in kidney cell differentiation. May play a regulatory role in mammalian development.
SUBUNIT: Interacts with WWTR1 (By similarity).
SUBCELLULAR LOCATION: Nucleus.
TISSUE SPECIFICITY: Expressed in the developing excretory system and the thyroid gland.
SIMILARITY: Contains 1 paired domain.

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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -85.60198-0.432 Picture PostScript Text
3' UTR -271.40988-0.275 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
IPR009057 - Homeodomain-like
IPR001523 - Paired_dom
IPR022130 - Pax2_C
IPR011991 - WHTH_trsnscrt_rep_DNA-bd

Pfam Domains:
PF00292 - 'Paired box' domain
PF12403 - Paired-box protein 2 C terminal

SCOP Domains:
46689 - Homeodomain-like
46785 - "Winged helix" DNA-binding domain

ModBase Predicted Comparative 3D Structure on Q00288
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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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
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Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0000979 RNA polymerase II core promoter sequence-specific DNA binding
GO:0001077 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein binding
GO:0043565 sequence-specific DNA binding
GO:0044212 transcription regulatory region DNA binding

Biological Process:
GO:0001655 urogenital system development
GO:0001656 metanephros development
GO:0001658 branching involved in ureteric bud morphogenesis
GO:0001822 kidney development
GO:0001823 mesonephros development
GO:0003281 ventricular septum development
GO:0003337 mesenchymal to epithelial transition involved in metanephros morphogenesis
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0006790 sulfur compound metabolic process
GO:0007275 multicellular organism development
GO:0007417 central nervous system development
GO:0009887 animal organ morphogenesis
GO:0010667 negative regulation of cardiac muscle cell apoptotic process
GO:0030154 cell differentiation
GO:0030878 thyroid gland development
GO:0039003 pronephric field specification
GO:0042472 inner ear morphogenesis
GO:0042981 regulation of apoptotic process
GO:0045893 positive regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0048793 pronephros development
GO:0071371 cellular response to gonadotropin stimulus
GO:0071599 otic vesicle development
GO:0072050 S-shaped body morphogenesis
GO:0072073 kidney epithelium development
GO:0072108 positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis
GO:0072164 mesonephric tubule development
GO:0072207 metanephric epithelium development
GO:0072221 metanephric distal convoluted tubule development
GO:0072278 metanephric comma-shaped body morphogenesis
GO:0072284 metanephric S-shaped body morphogenesis
GO:0072289 metanephric nephron tubule formation
GO:0072305 negative regulation of mesenchymal cell apoptotic process involved in metanephric nephron morphogenesis
GO:0072307 regulation of metanephric nephron tubule epithelial cell differentiation
GO:0090190 positive regulation of branching involved in ureteric bud morphogenesis
GO:1900212 negative regulation of mesenchymal cell apoptotic process involved in metanephros development
GO:1900215 negative regulation of apoptotic process involved in metanephric collecting duct development
GO:1900218 negative regulation of apoptotic process involved in metanephric nephron tubule development
GO:2000594 positive regulation of metanephric DCT cell differentiation
GO:2000611 positive regulation of thyroid hormone generation
GO:2000612 regulation of thyroid-stimulating hormone secretion

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005667 transcription factor complex


-  Descriptions from all associated GenBank mRNAs
  AK052610 - Mus musculus 0 day neonate kidney cDNA, RIKEN full-length enriched library, clone:D630004L01 product:PAIRED BOX GENE 8 homolog [Mus musculus], full insert sequence.
BC020526 - Mus musculus paired box gene 8, mRNA (cDNA clone MGC:18390 IMAGE:4239835), complete cds.
X57487 - M.musculus mRNA Pax8.
AK050717 - Mus musculus 9 days embryo whole body cDNA, RIKEN full-length enriched library, clone:D030009M16 product:PAIRED BOX GENE 8 homolog [Mus musculus], full insert sequence.
AK032920 - Mus musculus 12 days embryo male wolffian duct includes surrounding region cDNA, RIKEN full-length enriched library, clone:6720473A10 product:paired box gene 8, full insert sequence.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu05200 - Pathways in cancer
mmu05216 - Thyroid cancer

-  Other Names for This Gene
  Alternate Gene Symbols: NM_011040, P97342, Pax-8, PAX8_MOUSE, Q00288, Q6GU20, uc008ipb.1, uc008ipb.2, uc008ipb.3
UCSC ID: uc008ipb.3
RefSeq Accession: NM_011040
Protein: Q00288 (aka PAX8_MOUSE)
CCDS: CCDS15738.1

+  Gene Model Information
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