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

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Pathways
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Gene: Rab5al1 (Rab5a, member RAS oncogene family-like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Rab5al1
Name: Rab5a, member RAS oncogene family-like 1
RGD ID: 2319287
Description: Predicted to enable G protein activity and GTP binding activity. Involved in endosome organization; postsynaptic neurotransmitter receptor internalization; and synaptic vesicle endocytosis. Located in several cellular components, including axon terminus; cytoplasmic vesicle; and neuronal cell body. Is active in glutamatergic synapse; postsynaptic endocytic zone membrane; and synaptic vesicle 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 Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81472,544,798 - 72,546,910 (+)NCBIGRCr8
mRatBN7.21468,332,360 - 68,334,470 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1468,332,558 - 68,333,205 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01472,889,022 - 72,891,156 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01472,907,962 - 72,909,355 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41473,512,120 - 73,515,650 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1467,268,924 - 67,271,050 (+)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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.

Genomics

Variants

.
Variants in Rab5al1
17 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143088377768757901Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143766971982669719Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143766971982669719Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143905723783368335Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143999825175582726Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat

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


Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000100183   ⟹   ENSRNOP00000096260
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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 ENSRNOP00000087406.1
  ENSRNOP00000096260
  ENSRNOP00000096260.1
Reference Protein Sequences
RefSeq Acc Id: XP_003751425   ⟸   XM_003751377
- UniProtKB: O88565 (UniProtKB/Swiss-Prot),   M0RC99 (UniProtKB/Swiss-Prot),   A0A8I6A5S3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq 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 ENSRNOG00000057056 UniProtKB/TrEMBL
  ENSRNOG00000062595 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000100183.1 UniProtKB/Swiss-Prot
  ENSRNOT00000105898.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Small_GTP-bd_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Small_GTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:100361891 UniProtKB/Swiss-Prot
  rno:64633 UniProtKB/Swiss-Prot
NCBI Gene 100361891 ENTREZGENE
PANTHER PTHR47978 UniProtKB/Swiss-Prot
  RAB43, MEMBER RAS ONCOGENE FAMILY UniProtKB/Swiss-Prot
  RAS-RELATED PROTEIN RAB UniProtKB/TrEMBL
  RAS-RELATED PROTEIN RAB-31 ISOFORM X1 UniProtKB/TrEMBL
Pfam Ras UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rab5al1 PhenoGen
PRINTS RASTRNSFRMNG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE RAB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RAS UniProtKB/TrEMBL
RatGTEx ENSRNOG00000057056 RatGTEx
  ENSRNOG00000062595 RatGTEx
SMART RAB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RAN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RHO UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP P-loop containing nucleoside triphosphate hydrolases UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
UniProt A0A8I6A5S3 ENTREZGENE, UniProtKB/TrEMBL
  M0RC99 ENTREZGENE
  O88565 ENTREZGENE
  RAB5A_RAT UniProtKB/Swiss-Prot
UniProt Secondary O88565 UniProtKB/Swiss-Prot


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