Chmp4c (charged multivesicular body protein 4C) - Rat Genome Database

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Gene: Chmp4c (charged multivesicular body protein 4C) Mus musculus
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Symbol: Chmp4c
Name: charged multivesicular body protein 4C
RGD ID: 1623999
MGI Page MGI
Description: Predicted to enable protein homodimerization activity. Predicted to be involved in several processes, including proteolysis involved in cellular protein catabolic process; regulation of cell cycle process; and vacuolar transport. Predicted to act upstream of or within protein transport. Predicted to be located in several cellular components, including Flemming body; bounding membrane of organelle; and kinetochore microtubule. Predicted to be part of ESCRT III complex and nuclear pore. Predicted to be active in cytoplasmic side of plasma membrane and multivesicular body. Is expressed in several structures, including alimentary system; cardiovascular system; genitourinary system; lung; and lymph node. Orthologous to human CHMP4C (charged multivesicular body protein 4C).
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 2010012P02Rik; 2210015K02Rik; 2310010I16Rik; chromatin modifying protein 4C; chromatin-modifying protein 4c; MGC144772; MGC144773; Shax3; Snf7; Snf7 homologue associated with Alix 3; Snf7-3
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39310,432,033 - 10,456,065 (+)NCBIGRCm39mm39
GRCm39 Ensembl310,431,967 - 10,493,916 (+)Ensembl
GRCm38310,366,973 - 10,391,005 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl310,366,907 - 10,428,856 (+)EnsemblGRCm38mm10GRCm38
MGSCv37310,366,973 - 10,391,005 (+)NCBIGRCm37mm9NCBIm37
MGSCv36310,349,505 - 10,373,537 (+)NCBImm8
MGSCv36310,412,264 - 10,436,293 (+)NCBImm8
Celera310,401,114 - 10,425,079 (+)NCBICelera
Cytogenetic Map3A1NCBI
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

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
1. Pipeline to import KEGG annotations from KEGG into RGD
2. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:16141072   PMID:16141073   PMID:17683935   PMID:21267068   PMID:21677750  
PMID:21873635   PMID:24194600   PMID:26496610   PMID:27626380   PMID:30135482   PMID:30590051   PMID:32269212   PMID:32581705  


Genomics

Comparative Map Data
Chmp4c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39310,432,033 - 10,456,065 (+)NCBIGRCm39mm39
GRCm39 Ensembl310,431,967 - 10,493,916 (+)Ensembl
GRCm38310,366,973 - 10,391,005 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl310,366,907 - 10,428,856 (+)EnsemblGRCm38mm10GRCm38
MGSCv37310,366,973 - 10,391,005 (+)NCBIGRCm37mm9NCBIm37
MGSCv36310,349,505 - 10,373,537 (+)NCBImm8
MGSCv36310,412,264 - 10,436,293 (+)NCBImm8
Celera310,401,114 - 10,425,079 (+)NCBICelera
Cytogenetic Map3A1NCBI
CHMP4C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl881,732,448 - 81,759,515 (+)EnsemblGRCh38hg38GRCh38
GRCh38881,732,448 - 81,759,515 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37882,644,683 - 82,671,750 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36882,807,243 - 82,834,305 (+)NCBINCBI36hg18NCBI36
Celera878,649,178 - 78,676,231 (+)NCBI
Cytogenetic Map8q21.13NCBI
HuRef878,134,628 - 78,161,684 (+)NCBIHuRef
CHM1_1882,696,279 - 82,723,341 (+)NCBICHM1_1
Chmp4c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2291,391,729 - 91,428,652 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl291,388,530 - 91,428,668 (-)Ensembl
Rnor_6.0293,574,554 - 93,641,497 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl293,574,559 - 93,641,497 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02113,334,155 - 113,340,595 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.02113,397,120 - 113,397,419 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4293,330,478 - 93,382,152 (-)NCBIRGSC3.4rn4RGSC3.4
Celera286,994,242 - 87,031,805 (-)NCBICelera
Cytogenetic Map2q23NCBI
Chmp4c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541796,865 - 137,739 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541796,674 - 135,601 (+)NCBIChiLan1.0ChiLan1.0
CHMP4C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1879,879,823 - 79,906,859 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl879,879,716 - 79,906,852 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0878,259,783 - 78,286,807 (+)NCBIMhudiblu_PPA_v0panPan3
CHMP4C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12928,839,459 - 28,865,793 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2928,839,516 - 28,865,023 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2929,120,369 - 29,146,705 (+)NCBI
ROS_Cfam_1.02928,973,519 - 28,999,876 (+)NCBI
ROS_Cfam_1.0 Ensembl2928,973,553 - 28,999,871 (+)Ensembl
UMICH_Zoey_3.12929,042,865 - 29,069,392 (+)NCBI
UNSW_CanFamBas_1.02929,056,789 - 29,083,112 (+)NCBI
UU_Cfam_GSD_1.02929,413,985 - 29,440,300 (+)NCBI
Chmp4c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530350,341,913 - 50,367,586 (-)NCBI
SpeTri2.0NW_0049366562,531,654 - 2,558,106 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHMP4C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl454,859,930 - 54,895,193 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1454,860,481 - 54,895,229 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2460,005,464 - 60,014,021 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CHMP4C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1877,143,302 - 77,174,874 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl877,143,612 - 77,173,852 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603964,018,455 - 64,051,732 (-)NCBIVero_WHO_p1.0
Chmp4c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247449,735,585 - 9,769,635 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
UniSTS:234644  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38310,390,121 - 10,390,353UniSTSGRCm38
MGSCv37310,390,121 - 10,390,353UniSTSGRCm37
Celera310,424,242 - 10,424,474UniSTS
Cytogenetic Map3A1UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301256Skmw1_mskeletal muscle weight 1 (mouse)Not determined3125721372Mouse
26884436Zlq3_mzygomatic length QTL 3, 10 week (mouse)33200000142700000Mouse
1300559Thypr3_mthymocyte proliferative response 3 (mouse)Not determined3447125538471355Mouse
1558925Hivan1_mHIV-associated nephropathy 1 (mouse)Not determined3752111468809613Mouse
4142399Aec1_mautoimmune exocrinopathy 1 (mouse)Not determined7521114102782718Mouse
4141563Lgq3_mlate growth QTL 3 (mouse)Not determined1018416183277639Mouse
1357440Hrtpq1_mheart weight percentage QTL 1 (mouse)Not determined31018416183277639Mouse
1357857Lvrq5_mliver weight QTL 5 (mouse)Not determined31018416183277639Mouse
1357584Splq6_mspleen weight QTL 6 (mouse)Not determined31018416183277639Mouse
4141116Lgaq4_mlate growth adjusted QTL 4 (mouse)Not determined1018416183277639Mouse
4141255W10q3_mweight 10 weeks QTL 3 (mouse)Not determined1018416183277639Mouse
39128206Lwq18_mliver weight QTL 18 (mouse)31018416183277639Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:417
Count of miRNA genes:265
Interacting mature miRNAs:301
Transcripts:ENSMUST00000029049
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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000029049   ⟹   ENSMUSP00000029049
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl310,431,967 - 10,460,397 (+)Ensembl
GRCm38.p6 Ensembl310,366,907 - 10,395,337 (+)Ensembl
RefSeq Acc Id: ENSMUST00000191826   ⟹   ENSMUSP00000141606
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl310,432,018 - 10,493,916 (+)Ensembl
GRCm38.p6 Ensembl310,366,958 - 10,428,856 (+)Ensembl
RefSeq Acc Id: NM_025519   ⟹   NP_079795
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39310,432,033 - 10,456,065 (+)NCBI
GRCm38310,366,973 - 10,391,005 (+)ENTREZGENE
MGSCv37310,366,973 - 10,391,005 (+)RGD
Celera310,401,114 - 10,425,079 (+)RGD
cM Map3 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_079795   ⟸   NM_025519
- UniProtKB: Q9D7F7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000029049   ⟸   ENSMUST00000029049
RefSeq Acc Id: ENSMUSP00000141606   ⟸   ENSMUST00000191826

Promoters
RGD ID:6833574
Promoter ID:MM_KWN:33769
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:ES_Cell,   Kidney,   Lung
Transcripts:OTTMUST00000068769
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36310,366,781 - 10,367,281 (+)MPROMDB
RGD ID:6880268
Promoter ID:EPDNEW_M3571
Type:initiation region
Name:Chmp4c_1
Description:Mus musculus charged multivesicular body protein 4C , 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
GRCm38310,366,948 - 10,367,008EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1913621 AgrOrtholog
Ensembl Genes ENSMUSG00000027536 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000029049 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000141606 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000029049 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000191826 UniProtKB/TrEMBL
InterPro Snf7_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:66371 UniProtKB/Swiss-Prot
MGD MGI:1913621 ENTREZGENE
NCBI Gene 66371 ENTREZGENE
Pfam Snf7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Chmp4c PhenoGen
UniProt A0A0A6YWM4_MOUSE UniProtKB/TrEMBL
  CHM4C_MOUSE UniProtKB/Swiss-Prot
  Q3TLQ5_MOUSE UniProtKB/TrEMBL
  Q9D7F7 ENTREZGENE
UniProt Secondary Q149R2 UniProtKB/Swiss-Prot
  Q3TVD7 UniProtKB/Swiss-Prot
  Q9CWH8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-10-04 Chmp4c  charged multivesicular body protein 4C  Chmp4c  chromatin modifying protein 4C  Symbol and/or name change 5135510 APPROVED