Chmp5 (charged multivesicular body protein 5) - Rat Genome Database

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Gene: Chmp5 (charged multivesicular body protein 5) Rattus norvegicus
Analyze
Symbol: Chmp5
Name: charged multivesicular body protein 5
RGD ID: 1305968
Description: Predicted to be involved in several processes, including cellular response to muramyl dipeptide; regulation of cell cycle process; and vacuolar transport. Predicted to act upstream of or within several processes, including endosome to lysosome transport; erythrocyte differentiation; and regulation of receptor recycling. Predicted to be located in several cellular components, including bounding membrane of organelle; kinetochore microtubule; and midbody. Predicted to be part of nuclear pore. Predicted to be active in multivesicular body. Orthologous to human CHMP5 (charged multivesicular body protein 5); PARTICIPATES IN endocytosis pathway; INTERACTS WITH acrylamide; amphetamine; benzo[a]pyrene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: chromatin modifying protein 5; chromatin-modifying protein 5; LOC297995; RGD1305968; similar to RIKEN cDNA 2210412K09
RGD Orthologs
Human
Mouse
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
GRCr8560,877,369 - 60,894,512 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl560,877,341 - 60,894,511 (+)EnsemblGRCr8
mRatBN7.2556,081,385 - 56,098,529 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl556,081,343 - 56,098,529 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx558,047,921 - 58,064,831 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0559,867,072 - 59,883,982 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0559,861,445 - 59,878,391 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0557,267,312 - 57,284,455 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl557,267,312 - 57,284,448 (+)Ensemblrn6Rnor6.0
Rnor_5.0561,798,642 - 61,815,785 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4558,342,606 - 58,359,749 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera554,693,232 - 54,710,375 (+)NCBICelera
RGSC_v3.1558,342,784 - 58,359,926 (+)NCBI
Cytogenetic Map5q22NCBI
JBrowse:




Disease 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. 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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11555636   PMID:12477932   PMID:15489334   PMID:15644320   PMID:16567502   PMID:19056867   PMID:20458337   PMID:20616062   PMID:23376485   PMID:23533145   PMID:25468996   PMID:27812135  


Genomics

Comparative Map Data
Chmp5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8560,877,369 - 60,894,512 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl560,877,341 - 60,894,511 (+)EnsemblGRCr8
mRatBN7.2556,081,385 - 56,098,529 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl556,081,343 - 56,098,529 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx558,047,921 - 58,064,831 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0559,867,072 - 59,883,982 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0559,861,445 - 59,878,391 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0557,267,312 - 57,284,455 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl557,267,312 - 57,284,448 (+)Ensemblrn6Rnor6.0
Rnor_5.0561,798,642 - 61,815,785 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4558,342,606 - 58,359,749 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera554,693,232 - 54,710,375 (+)NCBICelera
RGSC_v3.1558,342,784 - 58,359,926 (+)NCBI
Cytogenetic Map5q22NCBI
CHMP5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38933,265,049 - 33,282,070 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl933,264,017 - 33,282,071 (+)Ensemblhg38GRCh38
GRCh37933,265,047 - 33,282,068 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36933,255,000 - 33,271,510 (+)NCBIBuild 36Build 36hg18NCBI36
Celera933,195,015 - 33,211,653 (+)NCBICelera
Cytogenetic Map9p13.3NCBI
HuRef933,221,782 - 33,238,971 (+)NCBIHuRef
CHM1_1933,264,663 - 33,281,851 (+)NCBICHM1_1
T2T-CHM13v2.0933,283,696 - 33,300,716 (+)NCBIT2T-CHM13v2.0
Chmp5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39440,948,553 - 40,965,302 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl440,948,407 - 40,965,303 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38440,948,553 - 40,965,302 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl440,948,407 - 40,965,303 (+)Ensemblmm10GRCm38
MGSCv37440,895,586 - 40,912,335 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36441,137,224 - 41,153,973 (+)NCBIMGSCv36mm8
Celera440,609,231 - 40,625,980 (+)NCBICelera
Cytogenetic Map4A5NCBI
cM Map420.69NCBI
CHMP5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21191,322,305 - 91,338,710 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1991,328,250 - 91,344,657 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0933,043,148 - 33,059,564 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1933,851,377 - 33,867,942 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl933,851,377 - 33,867,942 (+)EnsemblpanPan2panpan1.1
CHMP5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11150,363,488 - 50,376,081 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1148,993,418 - 49,006,028 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01151,303,746 - 51,316,362 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1151,303,090 - 51,316,960 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11149,967,854 - 49,980,464 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01149,835,048 - 49,847,662 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01150,600,163 - 50,612,779 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Chmp5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947165,257,062 - 165,272,903 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365241,804,361 - 1,821,139 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365241,804,643 - 1,820,491 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHMP5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1033,211,516 - 33,227,302 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11033,212,769 - 33,227,237 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21037,441,083 - 37,484,295 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CHMP5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11246,989,349 - 47,006,035 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1246,988,340 - 47,006,742 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603843,883,297 - 43,900,003 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Chmp5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473638,025,247 - 38,044,808 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Chmp5
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11117,217,009 - 117,234,144 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Chmp5
172 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:78
Interacting mature miRNAs:89
Transcripts:ENSRNOT00000011907
Prediction methods: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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)53275164977751649Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53801167083011670Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)55266537294894052Rat
6907115Mcs29Mammary carcinoma susceptibility QTL 29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)53800433183004331Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)544924861153890773Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)52367149379046465Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)538207390136631402Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51757663362576633Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)548523123134369373Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53801167083011670Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53801167083011670Rat
1331782Rf36Renal function QTL 363.296kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)539019942102105896Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)53331167378311673Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)551657967166600247Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)53275164977751649Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)51748608062486080Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555124766172190305Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)53998594884985948Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5692228281330203Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53331167378311673Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)53952692484526924Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54852312391770353Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)560601597137492949Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906491770353Rat
61359EaexExperimental allergic encephalomyelitis QTL x3nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)560511627105511627Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5706553574335773Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)536460764136631402Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51748608062486080Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906487027358Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52602321171023211Rat
2303577Gluco47Glucose level QTL 473blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51652001961520019Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)556546393101546393Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)52367149368671493Rat


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
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000011907   ⟹   ENSRNOP00000011907
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl560,877,341 - 60,894,511 (+)Ensembl
mRatBN7.2 Ensembl556,081,343 - 56,098,529 (+)Ensembl
Rnor_6.0 Ensembl557,267,312 - 57,284,448 (+)Ensembl
RefSeq Acc Id: NM_001025410   ⟹   NP_001020581
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8560,877,369 - 60,894,512 (+)NCBI
mRatBN7.2556,081,385 - 56,098,529 (+)NCBI
Rnor_6.0557,267,312 - 57,284,455 (+)NCBI
Rnor_5.0561,798,642 - 61,815,785 (+)NCBI
RGSC_v3.4558,342,606 - 58,359,749 (+)RGD
Celera554,693,232 - 54,710,375 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001020581 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH86333 (Get FASTA)   NCBI Sequence Viewer  
  AAH97963 (Get FASTA)   NCBI Sequence Viewer  
  EDL98651 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000011907
  ENSRNOP00000011907.4
GenBank Protein Q4QQV8 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001020581   ⟸   NM_001025410
- UniProtKB: Q5RK31 (UniProtKB/Swiss-Prot),   Q4QQV8 (UniProtKB/Swiss-Prot),   A6IIT1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000011907   ⟸   ENSRNOT00000011907

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4QQV8-F1-model_v2 AlphaFold Q4QQV8 1-219 view protein structure

Transcriptome

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

Promoters
RGD ID:13693641
Promoter ID:EPDNEW_R4164
Type:initiation region
Name:Chmp5_1
Description:charged multivesicular body protein 5
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_6.0557,267,323 - 57,267,383EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305968 AgrOrtholog
BioCyc Gene G2FUF-41583 BioCyc
Ensembl Genes ENSRNOG00000008672 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000011907 ENTREZGENE
  ENSRNOT00000011907.8 UniProtKB/Swiss-Prot
Gene3D-CATH 6.10.250.1710 UniProtKB/Swiss-Prot
  ESAT-6-like UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7301194 IMAGE-MGC_LOAD
  IMAGE:7387550 IMAGE-MGC_LOAD
InterPro Snf7_fam UniProtKB/Swiss-Prot
KEGG Report rno:297995 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105925 IMAGE-MGC_LOAD
  MGC:116091 IMAGE-MGC_LOAD
NCBI Gene 297995 ENTREZGENE
PANTHER CHARGED MULTIVESICULAR BODY PROTEIN 5 UniProtKB/Swiss-Prot
  PTHR22761 UniProtKB/Swiss-Prot
Pfam Snf7 UniProtKB/Swiss-Prot
PhenoGen Chmp5 PhenoGen
RatGTEx ENSRNOG00000008672 RatGTEx
UniProt A6IIT1 ENTREZGENE, UniProtKB/TrEMBL
  CHMP5_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q5RK31 ENTREZGENE
UniProt Secondary Q5RK31 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-09-29 Chmp5  charged multivesicular body protein 5  Chmp5  chromatin modifying protein 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Chmp5  chromatin modifying protein 5  RGD1305968  similar to RIKEN cDNA 2210412K09  Symbol and Name updated 1299863 APPROVED
2005-12-06 RGD1305968  similar to RIKEN cDNA 2210412K09  RGD1305968_predicted  similar to RIKEN cDNA 2210412K09 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1305968_predicted  similar to RIKEN cDNA 2210412K09 (predicted)  LOC297995_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC297995_predicted  similar to RIKEN cDNA 2210412K09 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL