Rab9b (RAB9B, member RAS oncogene family) - Rat Genome Database

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Gene: Rab9b (RAB9B, member RAS oncogene family) Rattus norvegicus
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Symbol: Rab9b
Name: RAB9B, member RAS oncogene family
RGD ID: 1562951
Description: Predicted to enable G protein activity; GDP binding activity; and identical protein binding activity. Predicted to be involved in receptor-mediated endocytosis and retrograde transport, endosome to Golgi. Predicted to be located in cytosol; phagocytic vesicle membrane; and plasma membrane. Predicted to be active in late endosome; lysosome; and phagocytic vesicle. Orthologous to human RAB9B (RAB9B, member RAS oncogene family); PARTICIPATES IN measles pathway; INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; bromobenzene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC367915; ras-related protein Rab-9B; RGD1562951; similar to RAB9B, member RAS oncogene family
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X105,013,178 - 105,023,872 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX105,013,104 - 105,034,319 (-)EnsemblGRCr8
mRatBN7.2X100,220,897 - 100,231,591 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX100,220,894 - 100,231,701 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX102,351,081 - 102,361,775 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X105,849,755 - 105,860,445 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X103,418,926 - 103,429,616 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X107,531,404 - 107,542,510 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX107,531,404 - 107,542,510 (-)Ensemblrn6Rnor6.0
Rnor_5.0X107,414,930 - 107,426,468 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X124,525,742 - 124,528,535 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX101,055,137 - 101,065,806 (-)NCBICelera
Cytogenetic MapXq32NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:20937701   PMID:21255211   PMID:25220469  


Genomics

Comparative Map Data
Rab9b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X105,013,178 - 105,023,872 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX105,013,104 - 105,034,319 (-)EnsemblGRCr8
mRatBN7.2X100,220,897 - 100,231,591 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX100,220,894 - 100,231,701 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX102,351,081 - 102,361,775 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X105,849,755 - 105,860,445 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X103,418,926 - 103,429,616 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X107,531,404 - 107,542,510 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX107,531,404 - 107,542,510 (-)Ensemblrn6Rnor6.0
Rnor_5.0X107,414,930 - 107,426,468 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X124,525,742 - 124,528,535 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX101,055,137 - 101,065,806 (-)NCBICelera
Cytogenetic MapXq32NCBI
RAB9B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X103,776,324 - 103,832,257 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX103,822,327 - 103,835,153 (-)Ensemblhg38GRCh38
GRCh37X103,031,252 - 103,087,187 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X102,966,607 - 102,973,814 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34X102,886,095 - 102,893,303NCBI
CeleraX103,516,271 - 103,526,228 (-)NCBICelera
Cytogenetic MapXq22.2NCBI
HuRefX92,732,783 - 92,742,676 (-)NCBIHuRef
CHM1_1X102,970,244 - 102,980,201 (-)NCBICHM1_1
T2T-CHM13v2.0X102,223,281 - 102,279,224 (-)NCBIT2T-CHM13v2.0
Rab9b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X135,758,896 - 135,769,305 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX135,758,896 - 135,769,504 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38X136,858,147 - 136,868,556 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX136,858,147 - 136,868,755 (-)Ensemblmm10GRCm38
MGSCv37X133,392,690 - 133,403,079 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X132,204,515 - 132,214,904 (-)NCBIMGSCv36mm8
CeleraX120,140,142 - 120,150,492 (-)NCBICelera
Cytogenetic MapXF1NCBI
cM MapX59.1NCBI
Rab9b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955548825,208 - 829,815 (-)NCBIChiLan1.0ChiLan1.0
RAB9B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X103,443,483 - 103,453,503 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X103,447,084 - 103,457,100 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X93,060,899 - 93,070,911 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X103,442,543 - 103,451,813 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX103,444,776 - 103,445,381 (-)EnsemblpanPan2panpan1.1
RAB9B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X77,228,609 - 77,238,344 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX77,231,441 - 77,239,001 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_TashaX63,457,575 - 63,467,309 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0X78,846,172 - 78,865,879 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX78,846,174 - 78,856,496 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X76,324,746 - 76,334,480 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X78,011,443 - 78,021,177 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X77,778,585 - 77,788,319 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Rab9b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X77,151,172 - 77,161,702 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649910,437,611 - 10,504,320 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493649910,501,837 - 10,506,793 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RAB9B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX84,721,274 - 84,732,990 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1X84,721,269 - 84,733,000 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X98,599,279 - 98,610,984 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RAB9B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X91,716,741 - 91,727,167 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX91,719,610 - 91,720,212 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606516,582,249 - 16,667,935 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rab9b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462495497,988 - 102,617 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462495488,909 - 102,637 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Rab9b
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1X88,620,334 - 88,627,887 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Rab9b
19 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:641
Count of miRNA genes:312
Interacting mature miRNAs:414
Transcripts:ENSRNOT00000074140
Prediction methods:Miranda, Pita
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X97528096142528096Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X80434318125434318Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX92979612117740458Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX45182909117740458Rat
2302047Pia34Pristane induced arthritis QTL 345.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1996916163141916163Rat

Markers in Region
WI-21742  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8X105,013,864 - 105,014,128 (+)Marker Load Pipeline
mRatBN7.2X100,221,582 - 100,221,847 (+)MAPPERmRatBN7.2
Rnor_6.0X107,532,090 - 107,532,354NCBIRnor6.0
Rnor_5.0X107,415,616 - 107,415,880UniSTSRnor5.0
RGSC_v3.4X124,526,428 - 124,526,692UniSTSRGSC3.4
CeleraX101,055,823 - 101,056,087UniSTS
Cytogenetic MapXq35UniSTS
BE106581  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X100,221,003 - 100,221,136 (+)MAPPERmRatBN7.2
Rnor_6.0X107,531,511 - 107,531,643NCBIRnor6.0
Rnor_5.0X107,415,037 - 107,415,169UniSTSRnor5.0
RGSC_v3.4X124,525,849 - 124,525,981UniSTSRGSC3.4
CeleraX101,055,244 - 101,055,376UniSTS
Cytogenetic MapXq35UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
14 10 65 144 61 58 29 42 29 6 257 136 9 125 70 81 29 15 15

Sequence


Ensembl Acc Id: ENSRNOT00000074140   ⟹   ENSRNOP00000066233
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX105,013,104 - 105,024,232 (-)Ensembl
mRatBN7.2 EnsemblX100,220,894 - 100,231,701 (-)Ensembl
Rnor_6.0 EnsemblX107,531,404 - 107,542,510 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000144425   ⟹   ENSRNOP00000102042
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX105,014,904 - 105,034,319 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000160293   ⟹   ENSRNOP00000112785
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX105,013,862 - 105,030,935 (-)Ensembl
RefSeq Acc Id: NM_001109018   ⟹   NP_001102488
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X105,013,178 - 105,023,872 (-)NCBI
mRatBN7.2X100,220,897 - 100,231,591 (-)NCBI
Rnor_6.0X107,531,404 - 107,542,510 (-)NCBI
Rnor_5.0X107,414,930 - 107,426,468 (-)NCBI
RGSC_v3.4X124,525,742 - 124,528,535 (-)RGD
CeleraX101,055,137 - 101,065,806 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001102488 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL87990 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000066233
  ENSRNOP00000066233.1
  ENSRNOP00000102042.1
  ENSRNOP00000112785.1
RefSeq Acc Id: NP_001102488   ⟸   NM_001109018
- UniProtKB: D3ZP15 (UniProtKB/TrEMBL),   A6KNU6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000066233   ⟸   ENSRNOT00000074140
Ensembl Acc Id: ENSRNOP00000102042   ⟸   ENSRNOT00000144425
Ensembl Acc Id: ENSRNOP00000112785   ⟸   ENSRNOT00000160293

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZP15-F1-model_v2 AlphaFold D3ZP15 1-201 view protein structure

Transcriptome

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

Promoters
RGD ID:13701947
Promoter ID:EPDNEW_R12470
Type:single initiation site
Name:Rab9b_1
Description:RAB9B, member RAS oncogene family
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X107,542,557 - 107,542,617EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562951 AgrOrtholog
BioCyc Gene G2FUF-1604 BioCyc
Ensembl Genes ENSRNOG00000047960 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074140 ENTREZGENE
  ENSRNOT00000074140.3 UniProtKB/TrEMBL
  ENSRNOT00000144425.1 UniProtKB/TrEMBL
  ENSRNOT00000160293.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro P-loop_NTPase UniProtKB/TrEMBL
  Rab9 UniProtKB/TrEMBL
  Small_GTP-bd_dom UniProtKB/TrEMBL
  Small_GTPase UniProtKB/TrEMBL
KEGG Report rno:367915 UniProtKB/TrEMBL
NCBI Gene 367915 ENTREZGENE
PANTHER RAB FAMILY UniProtKB/TrEMBL
  RAS-RELATED PROTEIN RAB-9B UniProtKB/TrEMBL
Pfam Ras UniProtKB/TrEMBL
PhenoGen Rab9b PhenoGen
PRINTS RASTRNSFRMNG UniProtKB/TrEMBL
PROSITE RAB UniProtKB/TrEMBL
  RAS UniProtKB/TrEMBL
  RHO UniProtKB/TrEMBL
RatGTEx ENSRNOG00000047960 RatGTEx
SMART RAB UniProtKB/TrEMBL
  RAN UniProtKB/TrEMBL
  RAS UniProtKB/TrEMBL
  RHO UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A6KNU6 ENTREZGENE, UniProtKB/TrEMBL
  D3ZP15 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Rab9b  RAB9B, member RAS oncogene family   Rab9b_predicted  RAB9B, member RAS oncogene family (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Rab9b_predicted  RAB9B, member RAS oncogene family (predicted)  RGD1562951_predicted  similar to RAB9B, member RAS oncogene family (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1562951_predicted  similar to RAB9B, member RAS oncogene family (predicted)  LOC367915  similar to RAB9B, member RAS oncogene family  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC367915  similar to RAB9B, member RAS oncogene family      Symbol and Name status set to provisional 70820 PROVISIONAL