Human Gene RTKN (ENST00000272430.10_11) from GENCODE V47lift37
  Description: rhotekin, transcript variant 1 (from RefSeq NM_001015055.2)
Gencode Transcript: ENST00000272430.10_11
Gencode Gene: ENSG00000114993.17_16
Transcript (Including UTRs)
   Position: hg19 chr2:74,652,962-74,669,064 Size: 16,103 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr2:74,653,370-74,668,943 Size: 15,574 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:74,652,962-74,669,064)mRNA (may differ from genome)Protein (563 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RTKN_HUMAN
DESCRIPTION: RecName: Full=Rhotekin;
FUNCTION: Mediates Rho signaling to activate NF-kappa-B and may confer increased resistance to apoptosis to cells in gastric tumorigenesis. May play a novel role in the organization of septin structures.
SUBUNIT: Interacts via its C-terminal region with the TAX1BP3 PDZ domain. This interaction facilitates Rho-mediated activation of the c-Fos serum response element (SRE). Interacts with SEPT9. Specifically binds to GTP-bound RHOA, RHOB and RHOC and inhibits their GTPase activity.
TISSUE SPECIFICITY: Highly expressed in prostate, moderately in kidney, heart, brain, spleen, testis, placenta, small intestine, pancreas, skeletal muscle and peripheral blood leukocytes, and weakly in ovary, colon and thymus. Weakly expressed in all normal cell lines tested. Overexpressed in various cancer cell lines.
SIMILARITY: Contains 1 PH domain.
SIMILARITY: Contains 1 REM (Hr1) repeat.
SEQUENCE CAUTION: Sequence=AAL16767.1; Type=Frameshift; Positions=15, 20;

-  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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D000082 Acetaminophen
  • D013749 Tetrachlorodibenzodioxin
  • C517041 (4-amino-1,4-dihydro-3-(2-pyridyl)-5-thioxo-1,2,4-triazole)copper(II)
  • C495626 14-deoxy-11,12-didehydroandrographolide
  • C472791 3-(4'-hydroxy-3'-adamantylbiphenyl-4-yl)acrylic acid
  • C009505 4,4'-diaminodiphenylmethane
  • D016604 Aflatoxin B1
  • D001564 Benzo(a)pyrene
  • D002087 Butyrates
  • D002794 Choline
          more ... click here to view the complete list

+  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: 38.33 RPKM in Nerve - Tibial
Total median expression: 483.56 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 -45.20121-0.374 Picture PostScript Text
3' UTR -133.10408-0.326 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
IPR012966 - DUF1709
IPR011072 - HR1_rho-bd
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology

Pfam Domains:
PF00169 - PH domain
PF08174 - Cell division protein anillin

SCOP Domains:
46585 - HR1 repeat
50729 - PH domain-like

ModBase Predicted Comparative 3D Structure on Q9BST9
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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0005095 GTPase inhibitor activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0017048 Rho GTPase binding
GO:0017049 GTP-Rho binding

Biological Process:
GO:0006915 apoptotic process
GO:0007165 signal transduction
GO:0007266 Rho protein signal transduction
GO:0032185 septin cytoskeleton organization
GO:0034260 negative regulation of GTPase activity
GO:0042981 regulation of apoptotic process

Cellular Component:
GO:0005575 cellular_component
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  KJ892073 - Synthetic construct Homo sapiens clone ccsbBroadEn_01467 RTKN gene, encodes complete protein.
AF049227 - Homo sapiens RTKN mRNA, complete cds.
BC017727 - Homo sapiens rhotekin, mRNA (cDNA clone MGC:21407 IMAGE:4156096), complete cds.
AF290512 - Homo sapiens rhotekin mRNA, partial cds.
BC004558 - Homo sapiens rhotekin, mRNA (cDNA clone MGC:10735 IMAGE:3958836), complete cds.
LF207230 - JP 2014500723-A/14733: Polycomb-Associated Non-Coding RNAs.
JD083781 - Sequence 64805 from Patent EP1572962.
LF363264 - JP 2014500723-A/170767: Polycomb-Associated Non-Coding RNAs.
JD394065 - Sequence 375089 from Patent EP1572962.
JD489850 - Sequence 470874 from Patent EP1572962.
JD456187 - Sequence 437211 from Patent EP1572962.
JD466045 - Sequence 447069 from Patent EP1572962.
JD272787 - Sequence 253811 from Patent EP1572962.
JD513341 - Sequence 494365 from Patent EP1572962.
JD185821 - Sequence 166845 from Patent EP1572962.
KJ892074 - Synthetic construct Homo sapiens clone ccsbBroadEn_01468 RTKN gene, encodes complete protein.
DQ891471 - Synthetic construct clone IMAGE:100004101; FLH177262.01X; RZPDo839F03124D rhotekin (RTKN) gene, encodes complete protein.
EU176596 - Synthetic construct Homo sapiens clone IMAGE:100011401; FLH177259.01L; RZPDo839F03123D rhotekin (RTKN) gene, encodes complete protein.
AB527260 - Synthetic construct DNA, clone: pF1KB5288, Homo sapiens RTKN gene for rhotekin, without stop codon, in Flexi system.
LF363263 - JP 2014500723-A/170766: Polycomb-Associated Non-Coding RNAs.
LF363262 - JP 2014500723-A/170765: Polycomb-Associated Non-Coding RNAs.
AK310036 - Homo sapiens cDNA, FLJ17078.
AK308519 - Homo sapiens cDNA, FLJ98560.
AK307302 - Homo sapiens cDNA, FLJ97250.
MA598841 - JP 2018138019-A/170767: Polycomb-Associated Non-Coding RNAs.
MA598840 - JP 2018138019-A/170766: Polycomb-Associated Non-Coding RNAs.
MA598839 - JP 2018138019-A/170765: Polycomb-Associated Non-Coding RNAs.
MA442807 - JP 2018138019-A/14733: Polycomb-Associated Non-Coding RNAs.

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

Protein Q9BST9 (Reactome details) participates in the following event(s):

R-HSA-5666178 RTKN binds RHOA, RHOC or RHOB
R-HSA-5666197 RHOA:GTP:RTKN binds LIN7B
R-HSA-5666216 RHOA:GTP:RTKN binds TAX1BP3
R-HSA-5666185 RHO GTPases Activate Rhotekin and Rhophilins
R-HSA-195258 RHO GTPase Effectors
R-HSA-194315 Signaling by Rho GTPases
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000272430.1, ENST00000272430.2, ENST00000272430.3, ENST00000272430.4, ENST00000272430.5, ENST00000272430.6, ENST00000272430.7, ENST00000272430.8, ENST00000272430.9, H7BXD4, NM_001015055, Q8WVN1, Q96PT6, Q9BST9, Q9HB05, RTKN , RTKN1, RTKN_HUMAN, uc317iyx.1, uc317iyx.2
UCSC ID: ENST00000272430.10_11
RefSeq Accession: NM_001015055.2
Protein: Q9BST9 (aka RTKN_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.