Rab5al1 (Rab5a, member RAS oncogene family-like 1) - Rat Genome Database

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Gene: Rab5al1 (Rab5a, member RAS oncogene family-like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Rab5al1 (Ensembl: Rab5a)
Name: Rab5a, member RAS oncogene family-like 1 (Ensembl:RAB5A, member RAS oncogene family)
RGD ID: 2319287
Description: Enables GDP-dissociation inhibitor binding activity. Involved in several processes, including positive regulation of smooth muscle cell migration; positive regulation of smooth muscle cell proliferation; and vesicle-mediated transport in synapse. Located in several cellular components, including cytoplasmic vesicle; neuronal cell body; and perinuclear region of cytoplasm. Part of protein-containing complex. Is active in cytoplasmic vesicle; glutamatergic synapse; and postsynaptic endocytic zone membrane. Orthologous to human RAB5A (RAB5A, member RAS oncogene family); PARTICIPATES IN platelet-derived growth factor signaling pathway; INTERACTS WITH (+)-schisandrin B; tetrachloromethane.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC100361891; RAB5A, member RAS oncogene family-like; ras-related protein Rab-5A
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81472,544,798 - 72,546,910 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1472,544,833 - 72,546,887 (+)EnsemblGRCr8
mRatBN7.21468,332,360 - 68,334,470 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1468,332,558 - 68,333,205 (+)EnsemblmRatBN7.2
Rnor_6.01472,889,022 - 72,891,156 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01472,907,962 - 72,909,355 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41473,512,120 - 73,515,650 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1467,268,924 - 67,271,050 (+)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Critical role for Piccolo in synaptic vesicle retrieval. Ackermann F, etal., Elife. 2019 May 10;8. pii: 46629. doi: 10.7554/eLife.46629.
2. NMDA receptor-dependent activation of the small GTPase Rab5 drives the removal of synaptic AMPA receptors during hippocampal LTD. Brown TC, etal., Neuron. 2005 Jan 6;45(1):81-94. doi: 10.1016/j.neuron.2004.12.023.
3. The involvement of the small GTP-binding protein Rab5a in neuronal endocytosis. de Hoop MJ, etal., Neuron. 1994 Jul;13(1):11-22.
4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Endosomal sorting of readily releasable synaptic vesicles. Hoopmann P, etal., Proc Natl Acad Sci U S A. 2010 Nov 2;107(44):19055-60. doi: 10.1073/pnas.1007037107. Epub 2010 Oct 18.
6. Quantitative analysis of synaptic vesicle Rabs uncovers distinct yet overlapping roles for Rab3a and Rab27b in Ca2+-triggered exocytosis. Pavlos NJ, etal., J Neurosci. 2010 Oct 6;30(40):13441-53. doi: 10.1523/JNEUROSCI.0907-10.2010.
7. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. EARP is a multisubunit tethering complex involved in endocytic recycling. Schindler C, etal., Nat Cell Biol. 2015 May;17(5):639-50. doi: 10.1038/ncb3129. Epub 2015 Mar 23.
10. Molecular anatomy of a trafficking organelle. Takamori S, etal., Cell. 2006 Nov 17;127(4):831-46.
11. Composition of isolated synaptic boutons reveals the amounts of vesicle trafficking proteins. Wilhelm BG, etal., Science. 2014 May 30;344(6187):1023-8. doi: 10.1126/science.1252884.
12. EEA1, a tethering protein of the early sorting endosome, shows a polarized distribution in hippocampal neurons, epithelial cells, and fibroblasts. Wilson JM, etal., Mol Biol Cell. 2000 Aug;11(8):2657-71.
Additional References at PubMed
PMID:8166729   PMID:10468577   PMID:11795483   PMID:12703553   PMID:14709549   PMID:16154939   PMID:18353411   PMID:18653660   PMID:21125971  


Genomics

Variants

.
Variants in Rab5al1
6 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143802371083023710Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1459848686104848686Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143900944484009444Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143123808072970315Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143802371083023710Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1462398852107398852Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1460854936105854936Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1459848686104848686Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143802371083023710Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144261625899224555Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)146592028399224555Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143941117087582095Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143802371083023710Rat

Markers in Region
RH136188  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21468,333,239 - 68,333,446 (+)MAPPERmRatBN7.2
mRatBN7.296,511,654 - 6,511,861 (+)MAPPERmRatBN7.2
Rnor_6.01472,948,353 - 72,948,559NCBIRnor6.0
Rnor_6.01472,889,928 - 72,890,134NCBIRnor6.0
Rnor_5.01472,908,844 - 72,909,050UniSTSRnor5.0
Rnor_5.01472,967,269 - 72,967,475UniSTSRnor5.0
RGSC_v3.41473,515,685 - 73,515,891UniSTSRGSC3.4
RGSC_v3.491,492,623 - 1,492,829UniSTSRGSC3.4
Celera1467,269,820 - 67,270,026UniSTS
Cytogenetic Map9q11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
sensory system
visual system
7 1 16 52 55 123 81 11 51 35 32 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000100183   ⟹   ENSRNOP00000096260
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1472,544,833 - 72,546,887 (+)Ensembl
mRatBN7.2 Ensembl1468,332,558 - 68,333,205 (+)Ensembl
RefSeq Acc Id: XM_003751377   ⟹   XP_003751425
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81472,544,798 - 72,546,910 (+)NCBI
mRatBN7.21468,332,360 - 68,334,470 (+)NCBI
Rnor_6.01472,889,022 - 72,891,156 (+)NCBI
Rnor_5.01472,907,962 - 72,909,355 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003751425 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000096260
RefSeq Acc Id: XP_003751425   ⟸   XM_003751377
- UniProtKB: O88565 (UniProtKB/Swiss-Prot),   M0RC99 (UniProtKB/Swiss-Prot),   A0A8I6A5S3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000096260   ⟸   ENSRNOT00000100183

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0RC99-F1-model_v2 AlphaFold M0RC99 1-215 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2319287 AgrOrtholog
BioCyc Gene G2FUF-15490 BioCyc
Ensembl Genes ENSRNOG00000062595 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000100183 ENTREZGENE
NCBI Gene 100361891 ENTREZGENE
PhenoGen Rab5al1 PhenoGen
RatGTEx ENSRNOG00000062595 RatGTEx
UniProt A0A8I6A5S3 ENTREZGENE
  M0RC99 ENTREZGENE
  O88565 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Rab5al1  Rab5a, member RAS oncogene family-like 1  Rab5al1  Rab5a, member RAS oncogene family-like 1  Data merged from RGD:149736242 737654 PROVISIONAL
2021-08-09 Rab5al1  Rab5a, member RAS oncogene family-like 1      Symbol and Name status set to provisional 45752 PROVISIONAL
2013-03-26 Rab5al1  Rab5a, member RAS oncogene family-like 1  LOC100361891  RAB5A, member RAS oncogene family-like  Name and Symbol changed 629549 APPROVED
2010-05-05 LOC100361891  RAB5A, member RAS oncogene family-like      Symbol and Name status set to provisional 70820 PROVISIONAL