Human Gene RIN1 (ENST00000311320.9_10) from GENCODE V47lift37
  Description: Ras and Rab interactor 1, transcript variant 1 (from RefSeq NM_004292.3)
Gencode Transcript: ENST00000311320.9_10
Gencode Gene: ENSG00000174791.11_12
Transcript (Including UTRs)
   Position: hg19 chr11:66,097,712-66,103,905 Size: 6,194 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr11:66,099,747-66,103,873 Size: 4,127 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:66,097,712-66,103,905)mRNA (may differ from genome)Protein (783 aa)
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-  Comments and Description Text from UniProtKB
  ID: RIN1_HUMAN
DESCRIPTION: RecName: Full=Ras and Rab interactor 1; AltName: Full=Ras inhibitor JC99; AltName: Full=Ras interaction/interference protein 1;
FUNCTION: Ras effector protein, which may serve as an inhibitory modulator of neuronal plasticity in aversive memory formation. Can affect Ras signaling at different levels. First, by competing with RAF1 protein for binding to activated Ras. Second, by enhancing signaling from ABL1 and ABL2, which regulate cytoskeletal remodeling. Third, by activating RAB5A, possibly by functioning as a guanine nucleotide exchange factor (GEF) for RAB5A, by exchanging bound GDP for free GTP, and facilitating Ras-activated receptor endocytosis.
SUBUNIT: Interacts with the GTP-bound form of Ras proteins (NRAS, HRAS and KRAS). This interaction prevents the association between RAF1 and Ras. Interacts with 14-3-3 proteins YWHAB, YWHAE and YWHAZ when phosphorylated on Ser-351. Interacts with the SH3 domain of ABL1 and ABL2. Interacts with RAB5A. The interaction with Ras is probably regulated and antagonized by the interaction with 14-3-3 proteins. The interaction with 14-3-3 proteins is regulated by phosphorylation on Ser-351.
INTERACTION: P00519:ABL1; NbExp=4; IntAct=EBI-366017, EBI-375543; P42684:ABL2; NbExp=4; IntAct=EBI-366017, EBI-1102694; P00533:EGFR; NbExp=3; IntAct=EBI-366017, EBI-297353; P01112:HRAS; NbExp=5; IntAct=EBI-366017, EBI-350145; O75886:STAM2; NbExp=4; IntAct=EBI-366017, EBI-373258;
SUBCELLULAR LOCATION: Cytoplasm. Membrane. Cytoplasm, cytoskeleton. Note=Some amount is membrane-associated.
TISSUE SPECIFICITY: Expressed in all tissues examined with high levels in brain, placenta and pancreas.
PTM: Phosphorylated on tyrosine residues by ABL1 and ABL2. Phosphorylation at Ser-351 by PRKD1 induces interaction with 14-3- 3 proteins.
SIMILARITY: Belongs to the RIN (Ras interaction/interference) family.
SIMILARITY: Contains 1 Ras-associating domain.
SIMILARITY: Contains 1 SH2 domain.
SIMILARITY: Contains 1 VPS9 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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           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: 18.00 RPKM in Skin - Not Sun Exposed (Suprapubic)
Total median expression: 271.76 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 -4.4032-0.138 Picture PostScript Text
3' UTR -814.502035-0.400 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
IPR000159 - Ras-assoc
IPR000980 - SH2
IPR003123 - VPS9
IPR013995 - VPS9_subgr

Pfam Domains:
PF00788 - Ras association (RalGDS/AF-6) domain
PF02204 - Vacuolar sorting protein 9 (VPS9) domain

SCOP Domains:
109993 - VPS9 domain
55550 - SH2 domain

ModBase Predicted Comparative 3D Structure on Q13671
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     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005096 GTPase activator activity
GO:0005515 protein binding
GO:0017016 Ras GTPase binding
GO:0017112 Rab guanyl-nucleotide exchange factor activity

Biological Process:
GO:0006897 endocytosis
GO:0007165 signal transduction
GO:0007613 memory
GO:0008306 associative learning
GO:0031914 negative regulation of synaptic plasticity
GO:0043547 positive regulation of GTPase activity

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0030425 dendrite
GO:0043025 neuronal cell body


-  Descriptions from all associated GenBank mRNAs
  AB209445 - Homo sapiens mRNA for ras inhibitor RIN1 variant protein.
JD441772 - Sequence 422796 from Patent EP1572962.
JD329863 - Sequence 310887 from Patent EP1572962.
BC014417 - Homo sapiens Ras and Rab interactor 1, mRNA (cDNA clone MGC:20059 IMAGE:4549333), complete cds.
L36463 - Homo sapiens ras interactor (RIN1) mRNA, complete cds.
AK297757 - Homo sapiens cDNA FLJ53581 complete cds, highly similar to Ras and Rab interactor 1.
JD260364 - Sequence 241388 from Patent EP1572962.
JD376928 - Sequence 357952 from Patent EP1572962.
JD364314 - Sequence 345338 from Patent EP1572962.
JD365490 - Sequence 346514 from Patent EP1572962.
AK301430 - Homo sapiens cDNA FLJ51119 complete cds, highly similar to Ras and Rab interactor 1.
AK295365 - Homo sapiens cDNA FLJ51965 complete cds, highly similar to Ras and Rab interactor 1.
JD345382 - Sequence 326406 from Patent EP1572962.
JD436941 - Sequence 417965 from Patent EP1572962.
JD342797 - Sequence 323821 from Patent EP1572962.
DQ893675 - Synthetic construct clone IMAGE:100006305; FLH188143.01X; RZPDo839G11150D Ras and Rab interactor 1 (RIN1) gene, encodes complete protein.
DQ895838 - Synthetic construct Homo sapiens clone IMAGE:100010298; FLH188139.01L; RZPDo839G11149D Ras and Rab interactor 1 (RIN1) gene, encodes complete protein.
KJ898055 - Synthetic construct Homo sapiens clone ccsbBroadEn_07449 RIN1 gene, encodes complete protein.
KU178481 - Homo sapiens Ras and Rab interactor 1 isoform 1 (RIN1) mRNA, partial cds.
KU178482 - Homo sapiens Ras and Rab interactor 1 isoform 2 (RIN1) mRNA, partial cds, alternatively spliced.
KU178483 - Homo sapiens Ras and Rab interactor 1 isoform 3 (RIN1) mRNA, complete cds, alternatively spliced.
AB590240 - Synthetic construct DNA, clone: pFN21AE1381, Homo sapiens RIN1 gene for Ras and Rab interactor 1, without stop codon, in Flexi system.
JD404560 - Sequence 385584 from Patent EP1572962.
JD060458 - Sequence 41482 from Patent EP1572962.
JD174632 - Sequence 155656 from Patent EP1572962.

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

Protein Q13671 (Reactome details) participates in the following event(s):

R-HSA-8875320 RAB5 GEFs exchange GTP for GDP on RAB5
R-HSA-8876198 RAB GEFs exchange GTP for GDP on RABs
R-HSA-9007101 Rab regulation of trafficking
R-HSA-199991 Membrane Trafficking
R-HSA-5653656 Vesicle-mediated transport

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000311320.1, ENST00000311320.2, ENST00000311320.3, ENST00000311320.4, ENST00000311320.5, ENST00000311320.6, ENST00000311320.7, ENST00000311320.8, NM_004292, O15010, Q00427, Q13671, Q96CC8, RIN1_HUMAN, uc317oyw.1, uc317oyw.2
UCSC ID: ENST00000311320.9_10
RefSeq Accession: NM_004292.3
Protein: Q13671 (aka RIN1_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.