Human Gene FGD4 (ENST00000546442.5) from GENCODE V38
  Description: Homo sapiens FYVE, RhoGEF and PH domain containing 4 (FGD4), transcript variant 13, mRNA. (from RefSeq NM_001384130)
RefSeq Summary (NM_001330373): This gene encodes a protein that is involved in the regulation of the actin cytoskeleton and cell shape. This protein contains an actin filament-binding domain, which together with its Dbl homology domain and one of its pleckstrin homology domains, can form microspikes. This protein can activate MAPK8 independently of the actin filament-binding domain, and it is also involved in the activation of CDC42 via the exchange of bound GDP for free GTP. The activation of CDC42 also enables this protein to play a role in mediating the cellular invasion of Cryptosporidium parvum, an intracellular parasite that infects the gastrointestinal tract. Mutations in this gene can cause Charcot-Marie-Tooth disease type 4H (CMT4H), a disorder of the peripheral nervous system. Multiple alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2015]. Sequence Note: This RefSeq record was created from transcript and genomic sequence data to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on transcript alignments.
Gencode Transcript: ENST00000546442.5
Gencode Gene: ENSG00000139132.16
Transcript (Including UTRs)
   Position: hg38 chr12:32,502,184-32,641,519 Size: 139,336 Total Exon Count: 16 Strand: +
Coding Region
   Position: hg38 chr12:32,582,147-32,640,533 Size: 58,387 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesGeneReviewsMethods
Data last updated at UCSC: 2021-09-27 09:51:20

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:32,502,184-32,641,519)mRNA (may differ from genome)Protein (673 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsHGNC
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Wikipedia

-  Comments and Description Text from UniProtKB
  ID: F8W1R0_HUMAN
DESCRIPTION: SubName: Full=FYVE, RhoGEF and PH domain-containing protein 4;
SIMILARITY: Contains 1 DH (DBL-homology) domain.
SIMILARITY: Contains 2 PH domains.
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  MalaCards Disease Associations
  MalaCards Gene Search: FGD4
Diseases sorted by gene-association score: charcot-marie-tooth disease, type 4h* (1690), neuropathy, congenital hypomyelinating* (211), congenital hypomyelination neuropathy* (163), tooth disease (13), charcot-marie-tooth disease (12), sensory peripheral neuropathy (7)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.72 RPKM in Testis
Total median expression: 168.92 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 -138.60495-0.280 Picture PostScript Text
3' UTR -222.20986-0.225 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
IPR000219 - DH-domain
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology
IPR000306 - Znf_FYVE
IPR017455 - Znf_FYVE-rel
IPR011011 - Znf_FYVE_PHD
IPR013083 - Znf_RING/FYVE/PHD

Pfam Domains:
PF01363 - FYVE zinc finger
PF00169 - PH domain
PF00621 - RhoGEF domain

ModBase Predicted Comparative 3D Structure on F8W1R0
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
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:0005085 guanyl-nucleotide exchange factor activity
GO:0005089 Rho guanyl-nucleotide exchange factor activity
GO:0046872 metal ion binding

Biological Process:
GO:0035023 regulation of Rho protein signal transduction


-  Descriptions from all associated GenBank mRNAs
  AK297025 - Homo sapiens cDNA FLJ55905 complete cds, highly similar to FYVE, RhoGEF and PH domain-containing protein 4.
BC039708 - Homo sapiens FYVE, RhoGEF and PH domain containing 4, mRNA (cDNA clone IMAGE:5194873), with apparent retained intron.
BC063403 - Homo sapiens cDNA clone IMAGE:5192839, partial cds.
BC096746 - Homo sapiens FYVE, RhoGEF and PH domain containing 4, mRNA (cDNA clone IMAGE:5298083), with apparent retained intron.
AK057294 - Homo sapiens cDNA FLJ32732 fis, clone TESTI2001141, highly similar to Rattus norvegicus actin-filament binding protein Frabin mRNA.
BC045552 - Homo sapiens FYVE, RhoGEF and PH domain containing 4, mRNA (cDNA clone MGC:57222 IMAGE:4831180), complete cds.
AK303334 - Homo sapiens cDNA FLJ56188 complete cds, highly similar to FYVE, RhoGEF and PH domain-containing protein4.
AB385203 - Synthetic construct DNA, clone: pF1KB9340, Homo sapiens FGD4 gene for FYVE, RhoGEF and PH domain-containing protein 4, complete cds, without stop codon, in Flexi system.
AY367054 - Homo sapiens actin-filament binding protein frabin (FRABIN) mRNA, complete cds.
AL832064 - Homo sapiens mRNA; cDNA DKFZp313E1818 (from clone DKFZp313E1818).
KJ903689 - Synthetic construct Homo sapiens clone ccsbBroadEn_13083 FGD4 gene, encodes complete protein.
KR712055 - Synthetic construct Homo sapiens clone CCSBHm_00035127 FGD4 (FGD4) mRNA, encodes complete protein.
JD403177 - Sequence 384201 from Patent EP1572962.
JD466480 - Sequence 447504 from Patent EP1572962.
JD498601 - Sequence 479625 from Patent EP1572962.
JD251198 - Sequence 232222 from Patent EP1572962.
JD314226 - Sequence 295250 from Patent EP1572962.
JD089937 - Sequence 70961 from Patent EP1572962.
JD301612 - Sequence 282636 from Patent EP1572962.
JD051501 - Sequence 32525 from Patent EP1572962.
AL713762 - Homo sapiens mRNA; cDNA DKFZp434K1572 (from clone DKFZp434K1572).
JD420596 - Sequence 401620 from Patent EP1572962.
JD265275 - Sequence 246299 from Patent EP1572962.
JD132354 - Sequence 113378 from Patent EP1572962.
JD228284 - Sequence 209308 from Patent EP1572962.
JD165126 - Sequence 146150 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000546442.1, ENST00000546442.2, ENST00000546442.3, ENST00000546442.4, F8W1R0, F8W1R0_HUMAN, NM_001384130, uc058mop.1
UCSC ID: ENST00000546442.5
RefSeq Accession: NM_001330373
Protein: F8W1R0 CCDS: CCDS81679.1

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene FGD4:
cmt (Charcot-Marie-Tooth Hereditary Neuropathy Overview)

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