Human Gene FBXO27 (ENST00000292853.9_13) from GENCODE V47lift37
  Description: F-box protein 27 (from RefSeq NM_178820.5)
Gencode Transcript: ENST00000292853.9_13
Gencode Gene: ENSG00000161243.10_22
Transcript (Including UTRs)
   Position: hg19 chr19:39,514,661-39,523,189 Size: 8,529 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr19:39,516,051-39,522,867 Size: 6,817 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathways
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:39,514,661-39,523,189)mRNA (may differ from genome)Protein (283 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: FBX27_HUMAN
DESCRIPTION: RecName: Full=F-box only protein 27; AltName: Full=F-box/G-domain protein 5;
FUNCTION: Substrate-recognition component of the SCF (SKP1-CUL1-F- box protein)-type E3 ubiquitin ligase complex. Able to recognize and bind denatured glycoproteins, which are modified with complex- type oligosaccharides.
SUBUNIT: Part of a SCF (SKP1-cullin-F-box) protein ligase complex. Interacts with SKP1 and CUL1.
TISSUE SPECIFICITY: Predominantly expressed in brain, heart and kidney. Expressed at lower levels in liver and lung.
SIMILARITY: Contains 1 F-box domain.
SIMILARITY: Contains 1 FBA (F-box associated) domain.

-  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


+  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: 12.85 RPKM in Skin - Not Sun Exposed (Suprapubic)
Total median expression: 180.64 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -38.8073-0.532 Picture PostScript Text
3' UTR -470.901390-0.339 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
IPR007397 - F-box-assoc_dom
IPR001810 - F-box_dom_cyclin-like
IPR008979 - Galactose-bd-like

Pfam Domains:
PF00646 - F-box domain
PF04300 - F-box associated region
PF12937 - F-box-like

SCOP Domains:
81383 - F-box domain
49785 - Galactose-binding domain-like

ModBase Predicted Comparative 3D Structure on Q8NI29
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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:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding

Biological Process:
GO:0000209 protein polyubiquitination
GO:0043687 post-translational protein modification

Cellular Component:
GO:0005829 cytosol
GO:0019005 SCF ubiquitin ligase complex


-  Descriptions from all associated GenBank mRNAs
  BC030060 - Homo sapiens F-box protein 27, mRNA (cDNA clone MGC:39298 IMAGE:5421414), complete cds.
BC014527 - Homo sapiens F-box protein 27, mRNA (cDNA clone MGC:11162 IMAGE:3841901), complete cds.
GQ901044 - Homo sapiens clone HEL-T-156 epididymis secretory sperm binding protein mRNA, complete cds.
AF436061 - Homo sapiens F-box protein (FBG5) mRNA, complete cds.
JD237860 - Sequence 218884 from Patent EP1572962.
JD560146 - Sequence 541170 from Patent EP1572962.
JD063532 - Sequence 44556 from Patent EP1572962.
JD063531 - Sequence 44555 from Patent EP1572962.
JD334996 - Sequence 316020 from Patent EP1572962.
JD442739 - Sequence 423763 from Patent EP1572962.
JD378910 - Sequence 359934 from Patent EP1572962.
JD122212 - Sequence 103236 from Patent EP1572962.
JD530637 - Sequence 511661 from Patent EP1572962.
JD498253 - Sequence 479277 from Patent EP1572962.
JD243100 - Sequence 224124 from Patent EP1572962.
JD136072 - Sequence 117096 from Patent EP1572962.
JD136071 - Sequence 117095 from Patent EP1572962.
JD194807 - Sequence 175831 from Patent EP1572962.
JD537380 - Sequence 518404 from Patent EP1572962.
JD054626 - Sequence 35650 from Patent EP1572962.
JD242507 - Sequence 223531 from Patent EP1572962.
JD511582 - Sequence 492606 from Patent EP1572962.
JD286783 - Sequence 267807 from Patent EP1572962.
JD499678 - Sequence 480702 from Patent EP1572962.
JD443132 - Sequence 424156 from Patent EP1572962.
JD532320 - Sequence 513344 from Patent EP1572962.
JD558877 - Sequence 539901 from Patent EP1572962.
JD516056 - Sequence 497080 from Patent EP1572962.
JD362367 - Sequence 343391 from Patent EP1572962.
JD471846 - Sequence 452870 from Patent EP1572962.
JD344064 - Sequence 325088 from Patent EP1572962.
JD512773 - Sequence 493797 from Patent EP1572962.
JD412800 - Sequence 393824 from Patent EP1572962.
JD197814 - Sequence 178838 from Patent EP1572962.
JD212423 - Sequence 193447 from Patent EP1572962.
JD222865 - Sequence 203889 from Patent EP1572962.
JD560327 - Sequence 541351 from Patent EP1572962.
JD401914 - Sequence 382938 from Patent EP1572962.
JD401915 - Sequence 382939 from Patent EP1572962.
JD401916 - Sequence 382940 from Patent EP1572962.
JD116941 - Sequence 97965 from Patent EP1572962.
JD366340 - Sequence 347364 from Patent EP1572962.
JD292552 - Sequence 273576 from Patent EP1572962.
JD155831 - Sequence 136855 from Patent EP1572962.
JD138642 - Sequence 119666 from Patent EP1572962.
JD232832 - Sequence 213856 from Patent EP1572962.
JD410761 - Sequence 391785 from Patent EP1572962.
JD217970 - Sequence 198994 from Patent EP1572962.
JD507051 - Sequence 488075 from Patent EP1572962.
JD151309 - Sequence 132333 from Patent EP1572962.
JD398196 - Sequence 379220 from Patent EP1572962.
JD398197 - Sequence 379221 from Patent EP1572962.
JD390600 - Sequence 371624 from Patent EP1572962.
JD390599 - Sequence 371623 from Patent EP1572962.
JD111520 - Sequence 92544 from Patent EP1572962.
JD392275 - Sequence 373299 from Patent EP1572962.
JD191523 - Sequence 172547 from Patent EP1572962.
JD187998 - Sequence 169022 from Patent EP1572962.
JD356166 - Sequence 337190 from Patent EP1572962.
JD133928 - Sequence 114952 from Patent EP1572962.
JD561093 - Sequence 542117 from Patent EP1572962.
JD402226 - Sequence 383250 from Patent EP1572962.
JD180630 - Sequence 161654 from Patent EP1572962.
CU677033 - Synthetic construct Homo sapiens gateway clone IMAGE:100023310 5' read FBXO27 mRNA.
HQ448139 - Synthetic construct Homo sapiens clone IMAGE:100071524; CCSB006161_04 F-box protein 27 (FBXO27) gene, encodes complete protein.
KJ900107 - Synthetic construct Homo sapiens clone ccsbBroadEn_09501 FBXO27 gene, encodes complete protein.
JD559040 - Sequence 540064 from Patent EP1572962.

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

Protein Q8NI29 (Reactome details) participates in the following event(s):

R-HSA-983157 Interaction of E3 with substrate and E2-Ub complex
R-HSA-983147 Release of E3 from polyubiquitinated substrate
R-HSA-983140 Transfer of Ub from E2 to substrate and release of E2
R-HSA-8952620 NEDD8:AcM-UBE2M binds CRL1 E3 ubiquitin ligase complex
R-HSA-8956200 MyrG-DCUN1D3 binds CRL1 E3 ubiquitin ligase complex
R-HSA-8955241 CAND1 binds cytosolic CRL E3 ubiquitin ligases
R-HSA-8952618 AcM-UBE2M transfers NEDD8 to CRL1 E3 ubiquitin ligase complex
R-HSA-8955289 COMMDs displace CAND1 from cytosolic CRL E3 ubiquitin ligase complexes
R-HSA-8956040 COP9 signalosome deneddylates cytosolic CRL E3 ubiquitin ligase complexes
R-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
R-HSA-983169 Class I MHC mediated antigen processing & presentation
R-HSA-8951664 Neddylation
R-HSA-1280218 Adaptive Immune System
R-HSA-597592 Post-translational protein modification
R-HSA-168256 Immune System
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000292853.1, ENST00000292853.2, ENST00000292853.3, ENST00000292853.4, ENST00000292853.5, ENST00000292853.6, ENST00000292853.7, ENST00000292853.8, FBG5, FBX27, FBX27_HUMAN, NM_178820, Q8NI29, Q96C87, uc317lcp.1, uc317lcp.2
UCSC ID: ENST00000292853.9_13
RefSeq Accession: NM_178820.5
Protein: Q8NI29 (aka FBX27_HUMAN or FX27_HUMAN)

-  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.