Chmp2a (charged multivesicular body protein 2A) - Rat Genome Database

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Gene: Chmp2a (charged multivesicular body protein 2A) Mus musculus
Analyze
Symbol: Chmp2a
Name: charged multivesicular body protein 2A
RGD ID: 1550598
MGI Page MGI
Description: Predicted to enable phosphatidylcholine binding activity and protein domain specific binding activity. Predicted to be involved in several processes, including mitotic nuclear division; regulation of cell cycle process; and vacuolar transport. Located in cytosol. Is expressed in several structures, including branchial arch; facial prominence; ganglia; gut; and limb bud. Orthologous to human CHMP2A (charged multivesicular body protein 2A).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1500016L11Rik; chromatin modifying protein 2A; chromatin-modifying protein 2a; mVps2; vacuolar protein sorting-associated protein 2; vacuolar protein-sorting-associated protein 2
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Gm8185  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39712,765,933 - 12,768,704 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl712,765,937 - 12,768,734 (-)EnsemblGRCm39 Ensembl
GRCm38713,032,006 - 13,034,777 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl713,032,010 - 13,034,807 (-)EnsemblGRCm38mm10GRCm38
MGSCv37713,617,355 - 13,620,126 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36711,932,198 - 11,934,923 (-)NCBIMGSCv36mm8
Celera710,659,197 - 10,661,968 (-)NCBICelera
Cytogenetic Map7A1NCBI
cM Map77.73NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Database resources of the National Center for Biotechnology Information. Wheeler DL, etal., Nucleic Acids Res 2001 Jan 1;29(1):11-6.
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:12477932   PMID:14610273   PMID:15173323   PMID:15489334   PMID:16141072   PMID:16141073   PMID:16505166  
PMID:18799693   PMID:19234443   PMID:21267068   PMID:21677750   PMID:21873635   PMID:24457600   PMID:26496610   PMID:28671691   PMID:31040226   PMID:32098917   PMID:32325033   PMID:32968282  
PMID:34789720   PMID:37573008   PMID:38702144  


Genomics

Comparative Map Data
Chmp2a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39712,765,933 - 12,768,704 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl712,765,937 - 12,768,734 (-)EnsemblGRCm39 Ensembl
GRCm38713,032,006 - 13,034,777 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl713,032,010 - 13,034,807 (-)EnsemblGRCm38mm10GRCm38
MGSCv37713,617,355 - 13,620,126 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36711,932,198 - 11,934,923 (-)NCBIMGSCv36mm8
Celera710,659,197 - 10,661,968 (-)NCBICelera
Cytogenetic Map7A1NCBI
cM Map77.73NCBI
CHMP2A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381958,551,566 - 58,555,105 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1958,551,452 - 58,555,105 (-)EnsemblGRCh38hg38GRCh38
GRCh371959,062,933 - 59,066,472 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361963,754,745 - 63,758,298 (-)NCBINCBI36Build 36hg18NCBI36
Celera1956,106,112 - 56,109,665 (-)NCBICelera
Cytogenetic Map19q13.43NCBI
HuRef1955,373,170 - 55,376,723 (-)NCBIHuRef
CHM1_11959,056,762 - 59,060,315 (-)NCBICHM1_1
T2T-CHM13v2.01961,649,242 - 61,652,782 (-)NCBIT2T-CHM13v2.0
Chmp2a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8182,731,212 - 82,735,088 (-)NCBIGRCr8
mRatBN7.2173,660,045 - 73,662,894 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl173,660,046 - 73,662,452 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx179,040,454 - 79,042,837 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0187,604,795 - 87,607,178 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0180,795,536 - 80,797,919 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0165,540,808 - 65,543,708 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl165,541,322 - 65,543,707 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0166,352,033 - 66,354,941 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4172,889,349 - 72,891,734 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1172,966,677 - 72,969,771 (+)NCBI
Celera160,177,374 - 60,179,759 (+)NCBICelera
Cytogenetic Map1q21NCBI
Chmp2a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555841,156,828 - 1,160,056 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555841,156,828 - 1,160,056 (-)NCBIChiLan1.0ChiLan1.0
CHMP2A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22064,837,136 - 64,840,736 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11966,620,025 - 66,623,594 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01955,564,622 - 55,568,214 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11964,377,986 - 64,381,641 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1964,377,986 - 64,381,417 (-)Ensemblpanpan1.1panPan2
CHMP2A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1199,405,322 - 99,408,257 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl199,405,337 - 99,410,163 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha199,803,589 - 99,806,504 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01100,018,434 - 100,021,349 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1100,019,387 - 100,021,348 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1199,663,797 - 99,666,712 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0199,376,629 - 99,379,542 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01100,131,268 - 100,134,183 (+)NCBIUU_Cfam_GSD_1.0
Chmp2a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118217,983,013 - 217,986,001 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004937062133,361 - 136,329 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHMP2A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl663,102,156 - 63,104,943 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1663,102,155 - 63,105,032 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CHMP2A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1650,827,200 - 50,830,730 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl650,827,284 - 50,830,702 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660454,133,029 - 4,160,880 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Chmp2a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462483245,293 - 48,314 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Chmp2a
114 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:120
Count of miRNA genes:119
Interacting mature miRNAs:120
Transcripts:ENSMUST00000005711
Prediction methods:Miranda, Rnahybrid
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
1300722Sle3_msystemic lupus erythmatosus susceptibility 3 (mouse)Not determined7351172887142720Mouse
25314307Mlh1fc2_mMLH1 foci count 2 (mouse)76502999133501729Mouse
38501068Tip1_mtuberculosis immunophenotype 1, spleen CFU (mouse)7360299972549748Mouse
1301115Lrdm1_mlymphoproliferation (Fas) renal disease modifier 1 (mouse)Not determined7335204824879418Mouse
12904941Edlmmq6_mextensor digitorum longus muscle mass QTL 6 (mouse)7121821047Mouse
1301177Vent3_mventricular size 3 (mouse)Not determined7120511925Mouse
10054067Sle20_msystematic lupus erythematosus susceptibility 20 (mouse)Not determined7120511925Mouse
25394569Skmw57_mskeletal muscle weight 57, gastroc (mouse)7458046916687861Mouse
10449139Eosn1_meosinophil differential 1 (mouse)71248087746480877Mouse
12904948Tammq5_mtibialis anterior muscle mass QTL 5 (mouse)7121821047Mouse
1302115Abhr3_mallergen-induced bronchial hyperresponsiveness 3 (mouse)Not determined7331599616637423Mouse
12792978Fbmd3_mfemoral bone mineral density 3, females only (mouse)77050288142367832Mouse
1301572Sluc30_msusceptibility to lung cancer 30 (mouse)Not determined7243169636431844Mouse
1357699Nhdlq6_mnon-HDL QTL 6 (mouse)Not determined7998886743988984Mouse
10449158Eosn3_meosinophil differential 3 (mouse)71248087746480877Mouse
1558893Spir1_mStreptococcus pneumoniae infection resistance 1 (mouse)Not determined71030579844305936Mouse
12904953Gmmq5_mgastrocnemius muscle mass QTL 5 (mouse)7121821047Mouse
1302188Lxw6_mlupus BXSB x NZW 6 (mouse)Not determined7121698146Mouse

Markers in Region
RH127036  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381376,935,638 - 76,935,883UniSTSGRCm38
MGSCv371377,074,899 - 77,075,144UniSTSGRCm37
Celera1379,253,306 - 79,253,551UniSTS
Cytogenetic Map7A2UniSTS
Cytogenetic Map13C1UniSTS
MARC_7283-7284:996687724:1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38713,035,881 - 13,036,605UniSTSGRCm38
GRCm386117,473,080 - 117,473,286UniSTSGRCm38
MGSCv376117,423,098 - 117,423,304UniSTSGRCm37
MGSCv37713,621,230 - 13,621,954UniSTSGRCm37
Celera710,663,072 - 10,663,796UniSTS
Celera6119,297,127 - 119,297,333UniSTS
Cytogenetic Map6F1UniSTS
Cytogenetic Map7A1UniSTS
Cytogenetic Map7A2UniSTS
cM Map74.0UniSTS
Ubc-rs2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38713,035,253 - 13,035,463UniSTSGRCm38
MGSCv37713,620,602 - 13,620,812UniSTSGRCm37
Celera710,662,444 - 10,662,654UniSTS
Cytogenetic Map7A1UniSTS
Cytogenetic Map7A2UniSTS
cM Map74.0UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000005711   ⟹   ENSMUSP00000005711
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl712,765,941 - 12,768,734 (-)Ensembl
GRCm38.p6 Ensembl713,032,014 - 13,034,807 (-)Ensembl
Ensembl Acc Id: ENSMUST00000209487
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl712,765,941 - 12,768,597 (-)Ensembl
GRCm38.p6 Ensembl713,032,014 - 13,034,670 (-)Ensembl
Ensembl Acc Id: ENSMUST00000210587   ⟹   ENSMUSP00000148218
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl712,765,937 - 12,768,578 (-)Ensembl
GRCm38.p6 Ensembl713,032,010 - 13,034,651 (-)Ensembl
Ensembl Acc Id: ENSMUST00000211344   ⟹   ENSMUSP00000148233
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl712,765,941 - 12,768,571 (-)Ensembl
GRCm38.p6 Ensembl713,032,014 - 13,034,644 (-)Ensembl
Ensembl Acc Id: ENSMUST00000211369   ⟹   ENSMUSP00000147937
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl712,765,976 - 12,768,652 (-)Ensembl
GRCm38.p6 Ensembl713,032,049 - 13,034,725 (-)Ensembl
Ensembl Acc Id: ENSMUST00000211626   ⟹   ENSMUSP00000147393
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl712,765,946 - 12,768,666 (-)Ensembl
GRCm38.p6 Ensembl713,032,019 - 13,034,739 (-)Ensembl
RefSeq Acc Id: NM_001360730   ⟹   NP_001347659
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39712,765,933 - 12,768,704 (-)NCBI
GRCm38713,032,006 - 13,034,777 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001360731   ⟹   NP_001347660
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39712,765,933 - 12,768,704 (-)NCBI
GRCm38713,032,006 - 13,034,777 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001360733   ⟹   NP_001347662
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39712,765,933 - 12,768,704 (-)NCBI
GRCm38713,032,006 - 13,034,777 (-)NCBI
Sequence:
RefSeq Acc Id: NM_026885   ⟹   NP_081161
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39712,765,933 - 12,768,704 (-)NCBI
GRCm38713,032,006 - 13,034,777 (-)ENTREZGENE
MGSCv37713,617,355 - 13,620,126 (-)RGD
Celera710,659,197 - 10,661,968 (-)RGD
cM Map7 ENTREZGENE
Sequence:
RefSeq Acc Id: NR_153796
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39712,765,933 - 12,768,704 (-)NCBI
GRCm38713,032,006 - 13,034,777 (-)NCBI
Sequence:
RefSeq Acc Id: NP_081161   ⟸   NM_026885
- Peptide Label: isoform a
- UniProtKB: Q9DB34 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001347662   ⟸   NM_001360733
- Peptide Label: isoform c
- UniProtKB: A0A1B0GR63 (UniProtKB/TrEMBL),   A0A1B0GT75 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001347660   ⟸   NM_001360731
- Peptide Label: isoform b
RefSeq Acc Id: NP_001347659   ⟸   NM_001360730
- Peptide Label: isoform a
- UniProtKB: Q9DB34 (UniProtKB/Swiss-Prot)
Ensembl Acc Id: ENSMUSP00000147393   ⟸   ENSMUST00000211626
Ensembl Acc Id: ENSMUSP00000147937   ⟸   ENSMUST00000211369
Ensembl Acc Id: ENSMUSP00000148233   ⟸   ENSMUST00000211344
Ensembl Acc Id: ENSMUSP00000148218   ⟸   ENSMUST00000210587
Ensembl Acc Id: ENSMUSP00000005711   ⟸   ENSMUST00000005711

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9DB34-F1-model_v2 AlphaFold Q9DB34 1-222 view protein structure

Promoters
RGD ID:6891848
Promoter ID:EPDNEW_M9375
Type:initiation region
Name:Chmp2a_1
Description:Mus musculus charged multivesicular body protein 2A , transcriptvariant 2, 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
GRCm38713,034,744 - 13,034,804EPDNEW
RGD ID:6840832
Promoter ID:MM_KWN:48771
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:NM_026885
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36713,619,641 - 13,620,837 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1916203 AgrOrtholog
Ensembl Genes ENSMUSG00000033916 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000005711 ENTREZGENE
  ENSMUST00000005711.6 UniProtKB/Swiss-Prot
  ENSMUST00000210587 ENTREZGENE
  ENSMUST00000210587.2 UniProtKB/Swiss-Prot
  ENSMUST00000211344.2 UniProtKB/TrEMBL
  ENSMUST00000211369 ENTREZGENE
  ENSMUST00000211369.2 UniProtKB/TrEMBL
  ENSMUST00000211626 ENTREZGENE
  ENSMUST00000211626.2 UniProtKB/TrEMBL
Gene3D-CATH 6.10.140.1230 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Snf7_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:68953 UniProtKB/Swiss-Prot
MGD MGI:1916203 ENTREZGENE
NCBI Gene 68953 ENTREZGENE
PANTHER PTHR10476 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Snf7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Chmp2a PhenoGen
UniProt A0A1B0GR63 ENTREZGENE, UniProtKB/TrEMBL
  A0A1B0GSH4_MOUSE UniProtKB/TrEMBL
  A0A1B0GT75 ENTREZGENE, UniProtKB/TrEMBL
  CHM2A_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-10-04 Chmp2a  charged multivesicular body protein 2A  Chmp2a  chromatin modifying protein 2A  Symbol and/or name change 5135510 APPROVED