Commd3 (COMM domain containing 3) - Rat Genome Database

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Gene: Commd3 (COMM domain containing 3) Mus musculus
Analyze
Symbol: Commd3
Name: COMM domain containing 3
RGD ID: 1551310
MGI Page MGI
Description: Predicted to be involved in sodium ion transport. Predicted to be located in cytoplasm and nucleus. Is expressed in genitourinary system; pancreas; and submandibular gland primordium. Orthologous to human COMMD3 (COMM domain containing 3).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: AW550818; bmi-1 upstream gene protein; Bmi1 upstream; Bu; Bup; COMM domain-containing protein 3; D2Ertd542; D2Ertd542e
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39218,677,246 - 18,681,042 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl218,677,234 - 18,681,042 (+)EnsemblGRCm39 Ensembl
GRCm38218,672,435 - 18,676,231 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl218,672,384 - 18,676,231 (+)EnsemblGRCm38mm10GRCm38
MGSCv37218,594,089 - 18,597,843 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36218,590,216 - 18,593,970 (+)NCBIMGSCv36mm8
Celera218,564,347 - 18,568,097 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map212.9NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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
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. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, etal., Development 2000 Apr;127(8):1737-49.
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. 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.
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:1287475   PMID:8889548   PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:12477932   PMID:15489334   PMID:15782199   PMID:16141072   PMID:16141073   PMID:18287559  
PMID:18323671   PMID:21267068   PMID:21677750   PMID:24457600   PMID:31088898   PMID:32554809   PMID:37000855   PMID:37072858  


Genomics

Comparative Map Data
Commd3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39218,677,246 - 18,681,042 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl218,677,234 - 18,681,042 (+)EnsemblGRCm39 Ensembl
GRCm38218,672,435 - 18,676,231 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl218,672,384 - 18,676,231 (+)EnsemblGRCm38mm10GRCm38
MGSCv37218,594,089 - 18,597,843 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36218,590,216 - 18,593,970 (+)NCBIMGSCv36mm8
Celera218,564,347 - 18,568,097 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map212.9NCBI
COMMD3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381022,316,388 - 22,320,306 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1022,316,386 - 22,320,306 (+)EnsemblGRCh38hg38GRCh38
GRCh371022,605,317 - 22,609,235 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361022,645,305 - 22,649,243 (+)NCBINCBI36Build 36hg18NCBI36
Build 341022,645,304 - 22,649,243NCBI
Celera1022,293,008 - 22,296,946 (+)NCBICelera
Cytogenetic Map10p12.2NCBI
HuRef1022,266,781 - 22,270,715 (+)NCBIHuRef
CHM1_11022,606,039 - 22,609,973 (+)NCBICHM1_1
T2T-CHM13v2.01022,335,422 - 22,339,340 (+)NCBIT2T-CHM13v2.0
Commd3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81786,235,863 - 86,239,610 (+)NCBIGRCr8
mRatBN7.21781,327,444 - 81,331,191 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1781,327,405 - 81,331,177 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1784,800,687 - 84,804,431 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01788,636,087 - 88,639,831 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01782,652,829 - 82,656,573 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01785,356,042 - 85,359,835 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1785,356,042 - 85,359,833 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01787,079,392 - 87,083,185 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41792,775,474 - 92,779,187 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11792,786,306 - 92,790,020 (+)NCBI
Celera1780,609,621 - 80,611,929 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
Commd3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554296,559,719 - 6,564,414 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554296,559,824 - 6,563,701 (-)NCBIChiLan1.0ChiLan1.0
COMMD3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2834,996,486 - 35,000,478 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11035,001,811 - 35,005,803 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01022,473,001 - 22,476,953 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11022,848,417 - 22,852,396 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1022,848,417 - 22,852,396 (+)Ensemblpanpan1.1panPan2
COMMD3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1210,829,693 - 10,833,643 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl210,818,232 - 10,833,613 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha29,523,153 - 9,527,025 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.029,029,718 - 9,033,594 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl29,018,100 - 9,033,607 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.128,393,400 - 8,397,270 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.028,477,575 - 8,481,443 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.028,645,450 - 8,649,327 (-)NCBIUU_Cfam_GSD_1.0
Commd3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934422,237,251 - 22,241,696 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365205,718,150 - 5,723,257 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365205,718,776 - 5,722,644 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COMMD3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1052,597,587 - 52,601,733 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11052,597,391 - 52,601,376 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21058,251,896 - 58,255,880 (-)NCBISscrofa10.2Sscrofa10.2susScr3
COMMD3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1922,090,426 - 22,094,386 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605127,833,050 - 27,837,814 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Commd3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247966,287,849 - 6,291,671 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247966,288,057 - 6,291,618 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1016
Count of miRNA genes:373
Interacting mature miRNAs:426
Transcripts:ENSMUST00000061158, ENSMUST00000130537, ENSMUST00000131369, ENSMUST00000133685, ENSMUST00000133828, ENSMUST00000137317, ENSMUST00000137817, ENSMUST00000150590, ENSMUST00000151230, ENSMUST00000151974, ENSMUST00000154519, ENSMUST00000171845
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552707Cia23_mcollagen induced arthritis QTL 23 (mouse)Not determined21212953766556453Mouse
4142333Tgq10_mtriglyceride QTL 10 (mouse)Not determined125324559Mouse
12904743Carcdq3_mcardiac collagen deposition QTL 3 (mouse)2323494028179150Mouse
1300624Insq7_minsulin QTL 7 (mouse)Not determined2938444643384575Mouse
1301790Pcfm1_mperiosteal circumference and femur length 1 (mouse)Not determined2823629642236396Mouse
1301980Fcsa5_mfemoral cross-sectional area 5 (mouse)Not determined2767911541679261Mouse
4141836Tgq11_mtriglyceride QTL 11 (mouse)Not determined125324559Mouse
10045633Heal15_mwound healing/regeneration 15 (mouse)Not determined2121989642Mouse
1301769Orgwq2_morgan weight QTL 2 (mouse)Not determined2388712693421651Mouse
1301641Sbmd2_mspinal bone mineral density 2 (mouse)Not determined21421456748214713Mouse
1301838Sluc16_msusceptibility to lung cancer 16 (mouse)Not determined2126529589Mouse
10043876Adip22_madiposity 22 (mouse)Not determined2830805142308240Mouse
10755513Amzn4_manatomical modifier of Zfp423 4 (mouse)2938444643384575Mouse
12903993Opfaq1_mopen field activity QTL 1 (mouse)2967669127022642Mouse

Markers in Region
AW550818  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38218,675,953 - 18,676,064UniSTSGRCm38
MGSCv37218,597,580 - 18,597,691UniSTSGRCm37
Celera218,567,834 - 18,567,945UniSTS
Cytogenetic Map2A3UniSTS
cM Map29.0UniSTS
cM Map29.0UniSTS
Whitehead/MRC_RH2322.0UniSTS
UniSTS:234331  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38218,674,435 - 18,674,702UniSTSGRCm38
MGSCv37218,596,062 - 18,596,329UniSTSGRCm37
Celera218,566,317 - 18,566,584UniSTS
Cytogenetic Map2A3UniSTS
cM Map29.0UniSTS
cM Map29.0UniSTS
AU022527  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38218,676,007 - 18,676,204UniSTSGRCm38
MGSCv37218,597,634 - 18,597,831UniSTSGRCm37
Celera218,567,888 - 18,568,085UniSTS
Cytogenetic Map2A3UniSTS
cM Map29.0UniSTS
cM Map29.5UniSTS
Whitehead/MRC_RH2317.35UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000061158   ⟹   ENSMUSP00000049882
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,677,234 - 18,681,042 (+)Ensembl
GRCm38.p6 Ensembl218,672,423 - 18,676,231 (+)Ensembl
Ensembl Acc Id: ENSMUST00000130537
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,679,158 - 18,680,734 (+)Ensembl
GRCm38.p6 Ensembl218,674,347 - 18,675,923 (+)Ensembl
Ensembl Acc Id: ENSMUST00000131369
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,678,469 - 18,679,208 (+)Ensembl
GRCm38.p6 Ensembl218,673,658 - 18,674,397 (+)Ensembl
Ensembl Acc Id: ENSMUST00000133685
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,678,772 - 18,680,739 (+)Ensembl
GRCm38.p6 Ensembl218,673,961 - 18,675,928 (+)Ensembl
Ensembl Acc Id: ENSMUST00000133828
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,677,246 - 18,679,446 (+)Ensembl
GRCm38.p6 Ensembl218,672,435 - 18,674,635 (+)Ensembl
Ensembl Acc Id: ENSMUST00000137317
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,677,334 - 18,679,211 (+)Ensembl
GRCm38.p6 Ensembl218,672,523 - 18,674,400 (+)Ensembl
Ensembl Acc Id: ENSMUST00000137817
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,678,896 - 18,680,792 (+)Ensembl
GRCm38.p6 Ensembl218,674,085 - 18,675,981 (+)Ensembl
Ensembl Acc Id: ENSMUST00000150590
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,679,235 - 18,679,817 (+)Ensembl
GRCm38.p6 Ensembl218,674,424 - 18,675,006 (+)Ensembl
Ensembl Acc Id: ENSMUST00000151230
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,679,460 - 18,680,312 (+)Ensembl
GRCm38.p6 Ensembl218,674,649 - 18,675,501 (+)Ensembl
Ensembl Acc Id: ENSMUST00000151974
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,677,244 - 18,679,503 (+)Ensembl
GRCm38.p6 Ensembl218,672,433 - 18,674,692 (+)Ensembl
Ensembl Acc Id: ENSMUST00000154519
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,677,247 - 18,679,323 (+)Ensembl
GRCm38.p6 Ensembl218,672,436 - 18,674,512 (+)Ensembl
Ensembl Acc Id: ENSMUST00000171845   ⟹   ENSMUSP00000127385
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl218,677,195 - 18,681,041 (+)Ensembl
GRCm38.p6 Ensembl218,672,384 - 18,676,230 (+)Ensembl
RefSeq Acc Id: NM_147778   ⟹   NP_680087
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39218,677,246 - 18,681,042 (+)NCBI
GRCm38218,672,435 - 18,676,231 (+)NCBI
MGSCv37218,594,089 - 18,597,843 (+)RGD
Celera218,564,347 - 18,568,097 (+)RGD
cM Map2 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_680087   ⟸   NM_147778
- UniProtKB: Q3UKI1 (UniProtKB/Swiss-Prot),   A2ASR4 (UniProtKB/Swiss-Prot),   Q8C9P5 (UniProtKB/Swiss-Prot),   Q63829 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000127385   ⟸   ENSMUST00000171845
Ensembl Acc Id: ENSMUSP00000049882   ⟸   ENSMUST00000061158
Protein Domains
COMM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63829-F1-model_v2 AlphaFold Q63829 1-195 view protein structure

Promoters
RGD ID:6831060
Promoter ID:MM_KWN:27901
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:OTTMUST00000026751,   OTTMUST00000026752,   OTTMUST00000026754,   OTTMUST00000026755,   OTTMUST00000026761
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36218,593,666 - 18,594,166 (+)MPROMDB
RGD ID:6831062
Promoter ID:MM_KWN:27902
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   MEF_B6
Transcripts:OTTMUST00000026753,   OTTMUST00000026756,   OTTMUST00000026757,   OTTMUST00000026758,   OTTMUST00000026759,   OTTMUST00000026760
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36218,594,251 - 18,594,751 (+)MPROMDB
RGD ID:6876428
Promoter ID:EPDNEW_M1665
Type:initiation region
Name:Commd3_1
Description:Mus musculus COMM domain containing 3 , 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
GRCm38218,672,462 - 18,672,522EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:88218 AgrOrtholog
Ensembl Genes ENSMUSG00000051154 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000061158 ENTREZGENE
  ENSMUST00000061158.5 UniProtKB/Swiss-Prot
InterPro COMM UniProtKB/Swiss-Prot
  COMMD3 UniProtKB/Swiss-Prot
KEGG Report mmu:12238 UniProtKB/Swiss-Prot
MGD MGI:88218 ENTREZGENE
NCBI Gene 12238 ENTREZGENE
PANTHER COMM DOMAIN-CONTAINING PROTEIN 3 UniProtKB/Swiss-Prot
  PTHR31159 UniProtKB/Swiss-Prot
Pfam COMM_domain UniProtKB/Swiss-Prot
  COMM_HN UniProtKB/Swiss-Prot
PhenoGen Commd3 PhenoGen
PROSITE COMM UniProtKB/Swiss-Prot
UniProt A2ASR4 ENTREZGENE
  COMD3_MOUSE UniProtKB/Swiss-Prot
  Q3UKI1 ENTREZGENE
  Q63829 ENTREZGENE
  Q8C9P5 ENTREZGENE
UniProt Secondary A2ASR4 UniProtKB/Swiss-Prot
  Q3UKI1 UniProtKB/Swiss-Prot
  Q8C9P5 UniProtKB/Swiss-Prot