Human Gene SEPTIN3 (ENST00000396426.7) from GENCODE V44
  Description: Homo sapiens septin 3 (SEPTIN3), transcript variant A, mRNA. (from RefSeq NM_145733)
RefSeq Summary (NM_145733): This gene belongs to the septin family of GTPases. Members of this family are required for cytokinesis. Expression is upregulated by retinoic acid in a human teratocarcinoma cell line. The specific function of this gene has not been determined. Alternative splicing of this gene results in several transcript variants encoding different isoforms. [provided by RefSeq, May 2018].
Gencode Transcript: ENST00000396426.7
Gencode Gene: ENSG00000100167.21
Transcript (Including UTRs)
   Position: hg38 chr22:41,976,810-41,998,221 Size: 21,412 Total Exon Count: 11 Strand: +
Coding Region
   Position: hg38 chr22:41,977,065-41,996,967 Size: 19,903 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsPrimersRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Methods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr22:41,976,810-41,998,221)mRNA (may differ from genome)Protein (358 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGencodeGeneCardsHPRD
MalacardsMGIneXtProtOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SEPT3_HUMAN
DESCRIPTION: RecName: Full=Neuronal-specific septin-3;
FUNCTION: Filament-forming cytoskeletal GTPase (By similarity). May play a role in cytokinesis (Potential).
SUBUNIT: Septins polymerize into heterooligomeric protein complexes that form filaments, and can associate with cellular membranes, actin filaments and microtubules. GTPase activity is required for filament formation (By similarity).
SUBCELLULAR LOCATION: Cytoplasm. Cytoplasm, cytoskeleton (By similarity). Cell junction, synapse (By similarity).
TISSUE SPECIFICITY: Brain-specific.
INDUCTION: Up-regulated during neuronal differentiation.
PTM: Phosphorylated by PKG on serine residues. Phosphorylated by PKG on Ser-91 (By similarity).
SIMILARITY: Belongs to the septin family.
SEQUENCE CAUTION: Sequence=AAG00517.1; Type=Erroneous initiation; Sequence=AAG00518.1; Type=Erroneous initiation; Sequence=AAG00519.1; Type=Erroneous initiation; Sequence=AAI11780.2; Type=Erroneous initiation; Sequence=CAD38797.1; Type=Erroneous initiation; Sequence=CAG30458.1; Type=Erroneous initiation;

-  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


-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 130.51 RPKM in Brain - Anterior cingulate cortex (BA24)
Total median expression: 971.02 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 -152.60255-0.598 Picture PostScript Text
3' UTR -364.771254-0.291 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
IPR000038 - Cell_div_GTP-bd
IPR016491 - Septin
IPR008114 - Septin3

Pfam Domains:
PF00735 - Septin

ModBase Predicted Comparative 3D Structure on Q9UH03
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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.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003674 molecular_function
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0042802 identical protein binding

Biological Process:
GO:0007049 cell cycle
GO:0051301 cell division

Cellular Component:
GO:0005737 cytoplasm
GO:0005856 cytoskeleton
GO:0030054 cell junction
GO:0045202 synapse


-  Descriptions from all associated GenBank mRNAs
  LF212620 - JP 2014500723-A/20123: Polycomb-Associated Non-Coding RNAs.
MA448197 - JP 2018138019-A/20123: Polycomb-Associated Non-Coding RNAs.
AK290037 - Homo sapiens cDNA FLJ76766 complete cds, highly similar to Homo sapiens septin 3 (SEPT3), transcript variant B, mRNA.
AK299919 - Homo sapiens cDNA FLJ57191 complete cds, highly similar to Neuronal-specific septin-3.
AL833942 - Homo sapiens mRNA; cDNA DKFZp761P16121 (from clone DKFZp761P16121).
JD191254 - Sequence 172278 from Patent EP1572962.
JD514303 - Sequence 495327 from Patent EP1572962.
BC111779 - Homo sapiens septin 3, mRNA (cDNA clone MGC:133218 IMAGE:40031828), complete cds.
JD540733 - Sequence 521757 from Patent EP1572962.
CR456572 - Homo sapiens SEPT3 full length open reading frame (ORF) cDNA clone (cDNA clone C22ORF:pGEM.SEPT3.V2).
AF285107 - Homo sapiens septin 3 isoform A mRNA, complete cds.
AF285108 - Homo sapiens septin 3 isoform C mRNA, complete cds.
AF285109 - Homo sapiens septin 3 isoform B mRNA, complete cds.
AB463248 - Synthetic construct DNA, clone: pF1KB3845, Homo sapiens SEPT3 gene for septin 3, without stop codon, in Flexi system.
CU013459 - Homo sapiens SEPT3, mRNA (cDNA clone IMAGE:100000429), complete cds, without stop codon, in Gateway system.
CU013171 - Homo sapiens SEPT3, mRNA (cDNA clone IMAGE:100000525), complete cds, with stop codon, in Gateway system.
AM392747 - Synthetic construct Homo sapiens clone IMAGE:100001932 for hypothetical protein (SEPT3 gene).
JD141448 - Sequence 122472 from Patent EP1572962.
KJ902899 - Synthetic construct Homo sapiens clone ccsbBroadEn_12293 SEPT3 gene, encodes complete protein.
AB209152 - Homo sapiens mRNA for septin 3 isoform B variant protein.
JD439396 - Sequence 420420 from Patent EP1572962.
JD469311 - Sequence 450335 from Patent EP1572962.
JD085498 - Sequence 66522 from Patent EP1572962.
JD390693 - Sequence 371717 from Patent EP1572962.
JD126824 - Sequence 107848 from Patent EP1572962.
JD277340 - Sequence 258364 from Patent EP1572962.
JD040825 - Sequence 21849 from Patent EP1572962.
JD150355 - Sequence 131379 from Patent EP1572962.
JD521621 - Sequence 502645 from Patent EP1572962.
JD402768 - Sequence 383792 from Patent EP1572962.
JD081448 - Sequence 62472 from Patent EP1572962.
JD230921 - Sequence 211945 from Patent EP1572962.
JD082596 - Sequence 63620 from Patent EP1572962.
JD036459 - Sequence 17483 from Patent EP1572962.
JD314695 - Sequence 295719 from Patent EP1572962.
JD253769 - Sequence 234793 from Patent EP1572962.
JD216459 - Sequence 197483 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B1AHR0, ENST00000396426.1, ENST00000396426.2, ENST00000396426.3, ENST00000396426.4, ENST00000396426.5, ENST00000396426.6, NM_145733, Q2NKJ7, Q59GF7, Q6IBZ6, Q8N3P3, Q9HD35, Q9UH03, SEP3, SEPT3, SEPT3_HUMAN, uc003bbr.1, uc003bbr.2, uc003bbr.3, uc003bbr.4, uc003bbr.5
UCSC ID: ENST00000396426.7
RefSeq Accession: NM_145733
Protein: Q9UH03 (aka SEPT3_HUMAN or SEP3_HUMAN)
CCDS: CCDS14026.2

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.