Rab40b (Rab40B, member RAS oncogene family) - Rat Genome Database

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Gene: Rab40b (Rab40B, member RAS oncogene family) Mus musculus
Analyze
Symbol: Rab40b
Name: Rab40B, member RAS oncogene family
RGD ID: 1313827
MGI Page MGI
Description: Predicted to enable GTPase activity. Predicted to be involved in protein localization to plasma membrane. Predicted to be located in mitochondrion; nuclear envelope; and perinuclear region of cytoplasm. Predicted to be active in endosome; plasma membrane; and synaptic vesicle. Predicted to colocalize with Golgi apparatus and lipid droplet. Orthologous to several human genes including RAB40B (RAB40B, member RAS oncogene family).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: rar; RAR SOCS box containing protein; ras-related protein Rab-40B; SEC4L; SOCS box-containing protein RAR
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911121,246,951 - 121,279,080 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11121,246,951 - 121,279,077 (-)EnsemblGRCm39 Ensembl
GRCm3811121,356,121 - 121,388,251 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11121,356,125 - 121,388,251 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711121,217,435 - 121,249,565 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611121,172,215 - 121,204,335 (-)NCBIMGSCv36mm8
Celera11133,093,587 - 133,125,778 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1185.28NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. The SOCS box: a tale of destruction and degradation. Kile BT, etal., Trends Biochem Sci 2002 May;27(5):235-41.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11773082   PMID:11856727   PMID:12466851   PMID:12477932   PMID:12578829   PMID:14610273   PMID:16141072   PMID:16141073  
PMID:16923123   PMID:21267068   PMID:21873635   PMID:27909076  


Genomics

Comparative Map Data
Rab40b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911121,246,951 - 121,279,080 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11121,246,951 - 121,279,077 (-)EnsemblGRCm39 Ensembl
GRCm3811121,356,121 - 121,388,251 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11121,356,125 - 121,388,251 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711121,217,435 - 121,249,565 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611121,172,215 - 121,204,335 (-)NCBIMGSCv36mm8
Celera11133,093,587 - 133,125,778 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1185.28NCBI
RAB40B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381782,654,973 - 82,698,698 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1782,654,973 - 82,698,698 (-)EnsemblGRCh38hg38GRCh38
GRCh371780,612,849 - 80,656,574 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361778,208,238 - 78,249,802 (-)NCBINCBI36Build 36hg18NCBI36
Build 341778,208,237 - 78,249,802NCBI
Celera1777,209,247 - 77,250,771 (-)NCBICelera
Cytogenetic Map17q25.3NCBI
HuRef1776,014,951 - 76,056,442 (-)NCBIHuRef
CHM1_11780,701,145 - 80,742,977 (-)NCBICHM1_1
T2T-CHM13v2.01783,529,323 - 83,573,130 (-)NCBIT2T-CHM13v2.0
Rab40b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr810107,129,801 - 107,157,375 (-)NCBIGRCr8
mRatBN7.210106,631,514 - 106,659,090 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10106,631,514 - 106,659,090 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx10111,733,874 - 111,761,463 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.010111,196,923 - 111,224,513 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.010106,551,924 - 106,579,498 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.010110,557,798 - 110,585,424 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10110,557,729 - 110,585,376 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010110,143,366 - 110,171,085 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410110,590,703 - 110,618,223 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.110110,605,202 - 110,632,641 (-)NCBI
Celera10105,169,974 - 105,197,417 (-)NCBICelera
Cytogenetic Map10q32.3NCBI
Rab40b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955506479,516 - 512,362 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955506480,236 - 509,038 (+)NCBIChiLan1.0ChiLan1.0
RAB40B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21999,196,529 - 99,241,990 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan117104,100,556 - 104,145,357 (-)NCBINHGRI_mPanPan1
PanPan1.1 Ensembl1782,872,403 - 82,902,803 (-)Ensemblpanpan1.1panPan2
RAB40B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha9359,952 - 379,474 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.09351,762 - 371,277 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl9351,795 - 371,277 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.19345,847 - 365,366 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.09507,101 - 526,608 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.09582,386 - 601,900 (+)NCBIUU_Cfam_GSD_1.0
RAB40B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl12493,315 - 516,962 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.112492,298 - 516,965 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.212221,054 - 245,023 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RAB40B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11674,558,970 - 74,595,967 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1674,559,763 - 74,595,841 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607746,199,797 - 46,237,650 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rab40b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480111,363,537 - 11,389,183 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462480111,363,539 - 11,389,201 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rab40b
809 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:889
Count of miRNA genes:502
Interacting mature miRNAs:588
Transcripts:ENSMUST00000106107, ENSMUST00000124639, ENSMUST00000135290, ENSMUST00000149948
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226789Feml16_mfemur length 16, 10 week (mouse)1187490826121873369Mouse
10044007Hbnr14_mHeligmosomoides bakeri nematode resistance 14 (mouse)Not determined1187502600121502698Mouse
11251723Ewc5_methanol withdrawal and consumption 5 (mouse)1189869251121973369Mouse
1558753Ath19_matherosclerosis 19 (mouse)Not determined1191604608121973369Mouse
1302034Pkccl_mprotein kinase C content in lungs (mouse)Not determined1191604608121973369Mouse
1301095El6_mepilepsy 6 (mouse)Not determined1193229183121973369Mouse
1301958Alcp18_malcohol preference locus 18 (mouse)Not determined1195403965121973369Mouse
1300944Alcp20_malcohol preference locus 20 (mouse)Not determined1195403965121973369Mouse
1300962Cd8mts4_mCD8 memory T cell subset 4 (mouse)Not determined1196137674121973369Mouse
1301057Nidd4_mnon-insulin-dependent diabetes mellitus 4 (mouse)Not determined1196810136121973369Mouse
1301983Berr2_mberghei resistance locus 2 (mouse)Not determined1198352609121973369Mouse
10043976Obq33_mobesity QTL 33 (mouse)Not determined1198500469121973369Mouse
10044001Alcw8_malcohol withdrawal 8 (mouse)Not determined1199254187121973369Mouse
11553867Stmm5_mskin tumor modifier of MSM 5 (mouse)11100058103121973369Mouse
1301012Vispl_mvisual placing (mouse)Not determined11101022590121973369Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000106107   ⟹   ENSMUSP00000101713
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11121,246,951 - 121,279,077 (-)Ensembl
GRCm38.p6 Ensembl11121,356,125 - 121,388,251 (-)Ensembl
RefSeq Acc Id: ENSMUST00000124639
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11121,250,417 - 121,279,047 (-)Ensembl
GRCm38.p6 Ensembl11121,359,591 - 121,388,221 (-)Ensembl
RefSeq Acc Id: ENSMUST00000135290
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11121,250,436 - 121,279,056 (-)Ensembl
GRCm38.p6 Ensembl11121,359,610 - 121,388,230 (-)Ensembl
RefSeq Acc Id: ENSMUST00000149948
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11121,248,828 - 121,278,891 (-)Ensembl
GRCm38.p6 Ensembl11121,358,002 - 121,388,065 (-)Ensembl
RefSeq Acc Id: NM_001404682   ⟹   NP_001391611
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3911121,246,951 - 121,279,080 (-)NCBI
RefSeq Acc Id: NM_139147   ⟹   NP_631886
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3911121,246,951 - 121,279,080 (-)NCBI
GRCm3811121,356,121 - 121,388,251 (-)ENTREZGENE
MGSCv3711121,217,435 - 121,249,565 (-)RGD
Celera11133,093,587 - 133,125,778 (-)RGD
cM Map11 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_001391611 (Get FASTA)   NCBI Sequence Viewer  
  NP_631886 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH96601 (Get FASTA)   NCBI Sequence Viewer  
  AAL60520 (Get FASTA)   NCBI Sequence Viewer  
  BAF02900 (Get FASTA)   NCBI Sequence Viewer  
  EDL34838 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000101713
  ENSMUSP00000101713.4
GenBank Protein Q8VHP8 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_631886   ⟸   NM_139147
- Peptide Label: isoform 2
- UniProtKB: Q8VHP8 (UniProtKB/Swiss-Prot),   Q4VA07 (UniProtKB/TrEMBL),   B1ATT4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000101713   ⟸   ENSMUST00000106107
RefSeq Acc Id: NP_001391611   ⟸   NM_001404682
- Peptide Label: isoform 1
- UniProtKB: B1ATT4 (UniProtKB/TrEMBL)
Protein Domains
SOCS box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8VHP8-F1-model_v2 AlphaFold Q8VHP8 1-278 view protein structure

Promoters
RGD ID:6821687
Promoter ID:MM_KWN:11023
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   Kidney,   Liver,   Lung
Transcripts:NM_139147,   OTTMUST00000010558,   OTTMUST00000010559,   OTTMUST00000010560
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv3611121,249,539 - 121,250,039 (-)MPROMDB
RGD ID:8677782
Promoter ID:EPDNEW_M16921
Type:initiation region
Name:Rab40b_1
Description:Mus musculus Rab40B, member RAS oncogene family , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3811121,388,221 - 121,388,281EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2183451 AgrOrtholog
Ensembl Genes ENSMUSG00000025170 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000106107 ENTREZGENE
  ENSMUST00000106107.3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SOCS box 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
  SOCS_box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SOCS_box-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:217371 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:2183451 ENTREZGENE
NCBI Gene 217371 ENTREZGENE
PANTHER LD44762P UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RAS-RELATED PROTEIN RAB-40B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Ras UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SOCS_box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rab40b PhenoGen
PRINTS RASTRNSFRMNG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE RAB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RAS UniProtKB/TrEMBL
  SOCS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
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
  SOCS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SOCS_box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF158235 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt B1ATT4 ENTREZGENE, UniProtKB/TrEMBL
  Q4VA07 ENTREZGENE, UniProtKB/TrEMBL
  Q8VHP8 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-04-30 Rab40b  Rab40B, member RAS oncogene family    Rab40b, member RAS oncogene family  Symbol and/or name change 5135510 APPROVED