Rab5b (RAB5B, member RAS oncogene family) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Rab5b (RAB5B, member RAS oncogene family) Chinchilla lanigera
Analyze
Symbol: Rab5b
Name: RAB5B, member RAS oncogene family
RGD ID: 8854048
Description: ENCODES a protein that exhibits GDP binding (ortholog); GTP-dependent protein binding (ortholog); GTPase activity (ortholog); INVOLVED IN antigen processing and presentation (ortholog); endosome organization (ortholog); plasma membrane to endosome transport (ortholog); ASSOCIATED WITH Pulmonary Surfactant Metabolism Dysfunction 1 (ortholog); FOUND IN endocytic vesicle (ortholog); endosome (ortholog); extracellular exosome (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ras-related protein Rab-5B
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554583,576,247 - 3,580,192 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554583,563,363 - 3,582,620 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
Rab5b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554583,576,247 - 3,580,192 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554583,563,363 - 3,582,620 (+)NCBIChiLan1.0ChiLan1.0
RAB5B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381255,973,949 - 55,996,683 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1255,973,913 - 55,996,683 (+)EnsemblGRCh38hg38GRCh38
GRCh371256,367,733 - 56,390,467 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361254,654,129 - 54,674,757 (+)NCBINCBI36Build 36hg18NCBI36
Build 341254,654,128 - 54,674,753NCBI
Celera1256,020,546 - 56,041,174 (+)NCBICelera
Cytogenetic Map12q13.2NCBI
HuRef1253,406,584 - 53,429,353 (+)NCBIHuRef
CHM1_11256,334,808 - 56,357,578 (+)NCBICHM1_1
T2T-CHM13v2.01255,941,012 - 55,963,746 (+)NCBIT2T-CHM13v2.0
Rab5b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910128,511,980 - 128,532,160 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10128,513,044 - 128,532,133 (-)EnsemblGRCm39 Ensembl
GRCm3810128,677,170 - 128,696,284 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10128,677,175 - 128,696,264 (-)EnsemblGRCm38mm10GRCm38
MGSCv3710128,114,235 - 128,133,324 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3610128,080,826 - 128,099,213 (-)NCBIMGSCv36mm8
Celera10131,069,284 - 131,088,400 (-)NCBICelera
Cytogenetic Map10D3NCBI
cM Map1077.13NCBI
Rab5b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr871,693,971 - 1,712,936 (-)NCBIGRCr8
mRatBN7.271,109,449 - 1,128,348 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl71,109,454 - 1,128,268 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx73,872,624 - 3,891,374 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.075,748,296 - 5,767,046 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.076,045,368 - 6,063,861 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.073,104,530 - 3,123,384 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl73,104,551 - 3,123,297 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.073,077,228 - 3,096,075 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.471,979,776 - 1,998,540 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.171,980,577 - 1,998,878 (-)NCBI
Celera7979,663 - 998,427 (-)NCBICelera
Cytogenetic Map7q11NCBI
RAB5B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21038,334,994 - 38,355,711 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11238,329,770 - 38,352,483 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01232,916,314 - 32,939,047 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11233,168,248 - 33,188,865 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1233,168,254 - 33,188,676 (-)Ensemblpanpan1.1panPan2
RAB5B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.110307,693 - 325,766 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl10320,366 - 323,844 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha10369,626 - 387,933 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.010314,513 - 332,609 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl10314,547 - 332,362 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.110292,317 - 310,622 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.010535,089 - 553,175 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.010659,367 - 677,675 (+)NCBIUU_Cfam_GSD_1.0
Rab5b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494558,461,972 - 58,483,266 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936646386,833 - 410,192 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936646386,958 - 408,265 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RAB5B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl521,387,250 - 21,389,745 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1521,373,333 - 21,392,729 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RAB5B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11151,912,417 - 51,933,862 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1151,926,016 - 51,931,356 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037194,051,372 - 194,074,986 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rab5b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480212,059,503 - 12,066,296 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462480212,058,916 - 12,065,177 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000017911   ⟹   ENSCLAP00000017736
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554583,576,247 - 3,580,192 (+)Ensembl
RefSeq Acc Id: XM_013520906   ⟹   XP_013376360
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554583,563,363 - 3,582,620 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013376360 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000017736
  ENSCLAP00000017736.1
RefSeq Acc Id: XP_013376360   ⟸   XM_013520906
- UniProtKB: A0A8C2VSM0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000017736   ⟸   ENSCLAT00000017911


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000012165 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000017911 ENTREZGENE
  ENSCLAT00000017911.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro P-loop_NTPase UniProtKB/TrEMBL
  Small_GTP-bd_dom UniProtKB/TrEMBL
  Small_GTPase UniProtKB/TrEMBL
NCBI Gene Rab5b ENTREZGENE
PANTHER PTHR47978 UniProtKB/TrEMBL
  RAB43, MEMBER RAS ONCOGENE FAMILY UniProtKB/TrEMBL
Pfam Ras UniProtKB/TrEMBL
PRINTS RASTRNSFRMNG UniProtKB/TrEMBL
PROSITE RAB UniProtKB/TrEMBL
  RAS UniProtKB/TrEMBL
  RHO UniProtKB/TrEMBL
SMART RAB UniProtKB/TrEMBL
  RAN UniProtKB/TrEMBL
  RAS UniProtKB/TrEMBL
  RHO UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A8C2VSM0 ENTREZGENE, UniProtKB/TrEMBL