Human Gene TRIOBP (ENST00000644935.1_8) from GENCODE V47lift37
  Description: TRIO and F-actin binding protein, transcript variant 6 (from RefSeq NM_001039141.3)
Gencode Transcript: ENST00000644935.1_8
Gencode Gene: ENSG00000100106.22_19
Transcript (Including UTRs)
   Position: hg19 chr22:38,093,055-38,172,563 Size: 79,509 Total Exon Count: 24 Strand: +
Coding Region
   Position: hg19 chr22:38,097,373-38,168,769 Size: 71,397 Coding Exon Count: 21 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr22:38,093,055-38,172,563)mRNA (may differ from genome)Protein (2365 aa)
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-  Comments and Description Text from UniProtKB
  ID: TARA_HUMAN
DESCRIPTION: RecName: Full=TRIO and F-actin-binding protein; AltName: Full=Protein Tara; AltName: Full=Trio-associated repeat on actin;
FUNCTION: May regulate actin cytoskeletal organization, cell spreading and cell contraction by directly binding and stabilizing filamentous F-actin. The localized formation of TARA and TRIO complexes coordinates the amount of F-actin present in stress fibers. May also serve as a linker protein to recruit proteins required for F-actin formation and turnover.
SUBUNIT: Binds to TRIO and F-actin. May also interact with myosin II. Interacts with HECTD3.
SUBCELLULAR LOCATION: Nucleus. Cytoplasm, cytoskeleton. Note=Localized to F-actin in a periodic pattern.
TISSUE SPECIFICITY: Widely expressed. Highly expressed in heart and placenta. Isoform 3 is expressed in fetal brain, retina and cochlea but is not detectable in the other tissues.
DOMAIN: Contains at least 2 actin-binding sites per coiled-coil dimer.
PTM: Ubiquitinated by HECTD3, leading to its degradation by the proteasome.
DISEASE: Defects in TRIOBP are the cause of deafness autosomal recessive type 28 (DFNB28) [MIM:609823].
MISCELLANEOUS: Has been identified in PubMed:9853615 by a selection system for genes encoding nuclear-targeted protein.
SIMILARITY: Contains 1 PH domain.
SEQUENCE CAUTION: Sequence=BAA34800.1; Type=Frameshift; Positions=478;

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: TRIOBP
Diseases sorted by gene-association score: deafness, autosomal recessive 28* (1238), nonsyndromic deafness* (161), nonsyndromic hearing loss and deafness* (133), dfnb28 nonsyndromic hearing loss and deafness* (100), autosomal recessive non-syndromic sensorineural deafness type dfnb* (76), autosomal recessive nonsyndromic deafness (19), deafness, autosomal recessive 37 (12)
* = Manually curated disease association

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

+  Common Gene Haplotype Alleles
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+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -71.40211-0.338 Picture PostScript Text
3' UTR -1058.602776-0.381 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
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology

Pfam Domains:
PF00169 - PH domain

SCOP Domains:
50729 - PH domain-like

ModBase Predicted Comparative 3D Structure on Q9H2D6
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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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003779 actin binding
GO:0017049 GTP-Rho binding
GO:0031625 ubiquitin protein ligase binding
GO:0045159 myosin II binding
GO:0051015 actin filament binding

Biological Process:
GO:0007049 cell cycle
GO:0007605 sensory perception of sound
GO:0030047 actin modification
GO:0032956 regulation of actin cytoskeleton organization
GO:0051016 barbed-end actin filament capping
GO:0051017 actin filament bundle assembly
GO:0051301 cell division
GO:0060088 auditory receptor cell stereocilium organization
GO:1900026 positive regulation of substrate adhesion-dependent cell spreading

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005815 microtubule organizing center
GO:0005856 cytoskeleton
GO:0005925 focal adhesion
GO:0015629 actin cytoskeleton
GO:0030496 midbody
GO:0032420 stereocilium
GO:0032437 cuticular plate


-  Descriptions from all associated GenBank mRNAs
  KX533494 - Homo sapiens TRIO and F-actin-binding protein (TRIOBP) mRNA, complete cds.
DQ278603 - Homo sapiens trio-associated repeat on actin (TRIOBP) mRNA, complete cds.
AK096634 - Homo sapiens cDNA FLJ39315 fis, A-OCBBF2013926.
DQ228003 - Homo sapiens TRIOBP isoform 3 (TRIOBP) mRNA, complete cds.
DQ228005 - Homo sapiens TRIOBP isoform 6 (TRIOBP) mRNA, complete cds.
AB587318 - Synthetic construct DNA, clone: pF1KA1662, Homo sapiens TRIOBP gene for TRIO and F-actin binding protein, without stop codon, in Flexi system.
AB051449 - Homo sapiens mRNA for KIAA1662 protein, partial cds.
DQ228004 - Homo sapiens TRIOBP isoform 4 (TRIOBP) mRNA, complete cds.
BC022200 - Homo sapiens TRIO and F-actin binding protein, mRNA (cDNA clone IMAGE:3356367).
AF281030 - Homo sapiens Tara mRNA, complete cds.
BC003618 - Homo sapiens TRIO and F-actin binding protein, mRNA (cDNA clone IMAGE:2988379), complete cds.
AM392748 - Synthetic construct Homo sapiens clone IMAGE:100002693 for hypothetical protein (TRIOBP gene).
AM392798 - Synthetic construct Homo sapiens clone IMAGE:100002694 for hypothetical protein (TRIOBP gene).
BC004303 - Homo sapiens TRIO and F-actin binding protein, mRNA (cDNA clone IMAGE:3623592), partial cds.
BC013278 - Homo sapiens TRIO and F-actin binding protein, mRNA (cDNA clone IMAGE:3639826), partial cds.
AL713698 - Homo sapiens mRNA; cDNA DKFZp547M048 (from clone DKFZp547M048).
AB015343 - Homo sapiens HRIHFB2122 mRNA, partial cds.
JD405594 - Sequence 386618 from Patent EP1572962.
JD177904 - Sequence 158928 from Patent EP1572962.
JD334220 - Sequence 315244 from Patent EP1572962.
JD098000 - Sequence 79024 from Patent EP1572962.
JD103042 - Sequence 84066 from Patent EP1572962.
JD052049 - Sequence 33073 from Patent EP1572962.
JD240320 - Sequence 221344 from Patent EP1572962.
JD139714 - Sequence 120738 from Patent EP1572962.
JD524487 - Sequence 505511 from Patent EP1572962.
JD297349 - Sequence 278373 from Patent EP1572962.
JD527755 - Sequence 508779 from Patent EP1572962.
JD470698 - Sequence 451722 from Patent EP1572962.
JD111958 - Sequence 92982 from Patent EP1572962.
JD337270 - Sequence 318294 from Patent EP1572962.
JD070630 - Sequence 51654 from Patent EP1572962.
JD342528 - Sequence 323552 from Patent EP1572962.
JD046081 - Sequence 27105 from Patent EP1572962.
JD154033 - Sequence 135057 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B1AHD4, B1AHD7, F2Z2W0, F8W6V6, HRIHFB2122, KIAA1662, NM_001039141, O94797, Q2PZW8, Q2Q3Z9, Q2Q400, Q5R3M6, Q96DW1, Q9BT77, Q9BTL7, Q9BY98, Q9H2D6, Q9Y3L4, TARA , TARA_HUMAN, uc328lcj.1, uc328lcj.2
UCSC ID: ENST00000644935.1_8
RefSeq Accession: NM_001039141.3
Protein: Q9H2D6 (aka TARA_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene TRIOBP:
deafness-overview (Genetic Hearing Loss Overview)

-  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.