Mouse Gene Zfp280d (ENSMUST00000184517.7) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: May function as a transcription factor. (from UniProt Q68FE8)
Gencode Transcript: ENSMUST00000184517.7
Gencode Gene: ENSMUSG00000038535.17
Transcript (Including UTRs)
   Position: mm10 chr9:72,274,879-72,341,093 Size: 66,215 Total Exon Count: 20 Strand: +
Coding Region
   Position: mm10 chr9:72,295,320-72,339,730 Size: 44,411 Coding Exon Count: 19 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:72,274,879-72,341,093)mRNA (may differ from genome)Protein (787 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGeneCardsMGIPubMed
SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: Z280D_MOUSE
DESCRIPTION: RecName: Full=Zinc finger protein 280D; AltName: Full=Suppressor of hairy wing homolog 4;
FUNCTION: May function as a transcription factor.
SUBCELLULAR LOCATION: Nucleus (Potential).
SIMILARITY: Contains 5 C2H2-type zinc fingers.

-  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 -69.79192-0.363 Picture PostScript Text
3' UTR -287.501363-0.211 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
IPR025243 - DUF4195
IPR007087 - Znf_C2H2
IPR015880 - Znf_C2H2-like

Pfam Domains:
PF13836 - Domain of unknown function (DUF4195)
PF13912 - C2H2-type zinc finger

SCOP Domains:
57667 - beta-beta-alpha zinc fingers

ModBase Predicted Comparative 3D Structure on Q68FE8
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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  LF197678 - JP 2014500723-A/5181: Polycomb-Associated Non-Coding RNAs.
AK169622 - Mus musculus 2 days neonate thymus thymic cells cDNA, RIKEN full-length enriched library, clone:E430002J07 product:hypothetical protein, full insert sequence.
AK172652 - Mus musculus activated spleen cDNA, RIKEN full-length enriched library, clone:F830224P18 product:hypothetical Zn-finger, C2H2 type containing protein, full insert sequence.
BC079878 - Mus musculus suppressor of hairy wing homolog 4 (Drosophila), mRNA (cDNA clone MGC:100010 IMAGE:6855096), complete cds.
AK146597 - Mus musculus 16 days embryo kidney cDNA, RIKEN full-length enriched library, clone:I920030K07 product:hypothetical protein, full insert sequence.
BC042445 - Mus musculus suppressor of hairy wing homolog 4 (Drosophila), mRNA (cDNA clone IMAGE:5368487), with apparent retained intron.
MA433255 - JP 2018138019-A/5181: Polycomb-Associated Non-Coding RNAs.
AK083266 - Mus musculus adult male hippocampus cDNA, RIKEN full-length enriched library, clone:C630032C17 product:unclassifiable, full insert sequence.
AK169721 - Mus musculus 2 days neonate thymus thymic cells cDNA, RIKEN full-length enriched library, clone:E430012P20 product:unclassifiable, full insert sequence.
AK045173 - Mus musculus 9.5 days embryo parthenogenote cDNA, RIKEN full-length enriched library, clone:B130043A04 product:similar to DJ322P7.1 (ZINC FINGER) (FRAGMENT) [Homo sapiens], full insert sequence.
LF308048 - JP 2014500723-A/115551: Polycomb-Associated Non-Coding RNAs.
AK052068 - Mus musculus 12 days embryo eyeball cDNA, RIKEN full-length enriched library, clone:D230041J17 product:unclassifiable, full insert sequence.
AK038065 - Mus musculus 16 days neonate thymus cDNA, RIKEN full-length enriched library, clone:A130075K10 product:hypothetical protein, full insert sequence.
LF308058 - JP 2014500723-A/115561: Polycomb-Associated Non-Coding RNAs.
MA543625 - JP 2018138019-A/115551: Polycomb-Associated Non-Coding RNAs.
MA543635 - JP 2018138019-A/115561: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: AK045173, Q3T9B1, Q68FE8, Q8BI82, Suhw4, uc009qpo.1, uc009qpo.2, uc009qpo.3, Z280D_MOUSE, Znf280d
UCSC ID: uc009qpo.3
RefSeq Accession: NM_001311105
Protein: Q68FE8 (aka Z280D_MOUSE)

-  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.