Mtx3 (metaxin 3) - Rat Genome Database

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Gene: Mtx3 (metaxin 3) Rattus norvegicus
Analyze
Symbol: Mtx3
Name: metaxin 3
RGD ID: 1583002
Description: Predicted to be involved in mitochondrion organization. Predicted to be part of SAM complex. Predicted to be active in cytoplasm. Orthologous to human MTX3 (metaxin 3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amphetamine; Brodifacoum.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC688905; metaxin-3; similar to metaxin 3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2224,066,332 - 24,079,708 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl224,066,365 - 24,079,670 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0222,427,453 - 22,440,813 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl222,427,474 - 22,435,307 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0241,632,699 - 41,646,059 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4223,094,794 - 23,103,004 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera220,153,712 - 20,167,069 (+)NCBICelera
Cytogenetic Map2q12NCBI
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

Biological Process

Cellular Component
cytoplasm  (IBA)
SAM complex  (IBA)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Mtx3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2224,066,332 - 24,079,708 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl224,066,365 - 24,079,670 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0222,427,453 - 22,440,813 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl222,427,474 - 22,435,307 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0241,632,699 - 41,646,059 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4223,094,794 - 23,103,004 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera220,153,712 - 20,167,069 (+)NCBICelera
Cytogenetic Map2q12NCBI
MTX3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38579,976,716 - 79,991,262 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl579,976,716 - 79,991,262 (-)EnsemblGRCh38hg38GRCh38
GRCh37579,272,539 - 79,287,085 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36579,308,295 - 79,322,844 (-)NCBINCBI36Build 36hg18NCBI36
Celera575,173,880 - 75,188,429 (-)NCBICelera
Cytogenetic Map5q14.1NCBI
HuRef574,480,421 - 74,494,969 (-)NCBIHuRef
CHM1_1578,705,626 - 78,720,176 (-)NCBICHM1_1
T2T-CHM13v2.0580,460,567 - 80,475,113 (-)NCBIT2T-CHM13v2.0
Mtx3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391392,981,251 - 92,994,738 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1392,981,268 - 92,994,738 (+)EnsemblGRCm39 Ensembl
GRCm381392,844,743 - 92,858,230 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1392,844,760 - 92,858,230 (+)EnsemblGRCm38mm10GRCm38
MGSCv371393,614,742 - 93,628,185 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361393,614,742 - 93,622,849 (+)NCBIMGSCv36mm8
Celera1396,445,843 - 96,459,282 (+)NCBICelera
Cytogenetic Map13C3NCBI
Mtx3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542521,174,408 - 21,182,643 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542521,174,432 - 21,182,643 (+)NCBIChiLan1.0ChiLan1.0
MTX3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1535,596,777 - 35,611,278 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl535,596,777 - 35,604,434 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0535,324,570 - 35,339,189 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
MTX3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1327,025,351 - 27,046,057 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl327,025,377 - 27,071,697 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha328,265,097 - 28,291,559 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0326,944,376 - 26,970,841 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl326,944,371 - 26,964,611 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1326,884,058 - 26,910,647 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0326,860,869 - 26,887,318 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0327,140,937 - 27,167,388 (+)NCBIUU_Cfam_GSD_1.0
Mtx3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213183,120,033 - 183,135,802 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365497,729,309 - 7,738,968 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365497,729,309 - 7,738,926 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MTX3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl288,664,516 - 88,680,337 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1288,664,511 - 88,680,367 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2290,387,771 - 90,399,917 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MTX3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1474,174,084 - 74,188,365 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl474,180,999 - 74,188,282 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604923,021,580 - 23,035,791 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mtx3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248694,484,965 - 4,496,257 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248694,481,774 - 4,496,269 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Mtx3
98 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:48
Count of miRNA genes:47
Interacting mature miRNAs:48
Transcripts:ENSRNOT00000061761
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631682Bp115Blood pressure QTL 1154.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2137410502Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2141244106Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)25873687102844969Rat
1600379Mcs18Mammary carcinoma susceptibility QTL 182.6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2788777242804738Rat
738012Anxrr3Anxiety related response QTL 33.8exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)2902351954023519Rat
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21159110056591100Rat
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)21185206249003364Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21649174061491740Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21907682564076825Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22030467265304672Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22066244865662448Rat

Markers in Region
RH131813  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2224,069,479 - 24,069,661 (+)MAPPERmRatBN7.2
Rnor_6.0222,430,587 - 22,430,768NCBIRnor6.0
Rnor_5.0241,635,833 - 41,636,014UniSTSRnor5.0
RGSC_v3.4223,098,230 - 23,098,411UniSTSRGSC3.4
Celera220,156,846 - 20,157,027UniSTS
Cytogenetic Map2q12UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 8 13 4 8 4 2 2 74 31 33 9 2
Low 3 34 44 37 11 37 6 9 4 8 2 6
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000061761   ⟹   ENSRNOP00000058474
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl224,066,365 - 24,077,337 (+)Ensembl
Rnor_6.0 Ensembl222,427,474 - 22,435,307 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000105896   ⟹   ENSRNOP00000084669
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl224,066,374 - 24,079,670 (+)Ensembl
RefSeq Acc Id: XM_003749167   ⟹   XP_003749215
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2224,066,332 - 24,079,708 (+)NCBI
Rnor_6.0222,427,453 - 22,440,813 (+)NCBI
Rnor_5.0241,632,699 - 41,646,059 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006231788   ⟹   XP_006231850
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2224,066,332 - 24,079,708 (+)NCBI
Rnor_6.0222,427,453 - 22,440,813 (+)NCBI
Rnor_5.0241,632,699 - 41,646,059 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039103450   ⟹   XP_038959378
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2224,066,332 - 24,070,038 (+)NCBI
RefSeq Acc Id: XR_005500503
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2224,066,332 - 24,073,947 (+)NCBI
RefSeq Acc Id: XR_005500504
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2224,066,332 - 24,073,957 (+)NCBI
RefSeq Acc Id: XR_351276
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2224,066,332 - 24,079,708 (+)NCBI
Rnor_6.0222,427,453 - 22,440,813 (+)NCBI
Rnor_5.0241,632,699 - 41,646,059 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003749215 (Get FASTA)   NCBI Sequence Viewer  
  XP_006231850 (Get FASTA)   NCBI Sequence Viewer  
  XP_038959378 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_003749215   ⟸   XM_003749167
- Peptide Label: isoform X1
- UniProtKB: D3ZNK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006231850   ⟸   XM_006231788
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000058474   ⟸   ENSRNOT00000061761
RefSeq Acc Id: XP_038959378   ⟸   XM_039103450
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000084669   ⟸   ENSRNOT00000105896
Protein Domains
GST_C_6   Tom37

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZNK1-F1-model_v2 AlphaFold D3ZNK1 1-311 view protein structure

Transcriptome

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

Promoters
RGD ID:13691068
Promoter ID:EPDNEW_R1588
Type:multiple initiation site
Name:Mtx3_1
Description:metaxin 3
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_6.0222,427,473 - 22,427,533EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583002 AgrOrtholog
BioCyc Gene G2FUF-54860 BioCyc
Ensembl Genes ENSRNOG00000023837 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000058474 ENTREZGENE
  ENSRNOP00000058474.3 UniProtKB/TrEMBL
  ENSRNOP00000084669.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061761 ENTREZGENE
  ENSRNOT00000061761.5 UniProtKB/TrEMBL
  ENSRNOT00000105896 ENTREZGENE
  ENSRNOT00000105896.1 UniProtKB/TrEMBL
InterPro Glutathione-S-Trfase_C_sf UniProtKB/TrEMBL
  Glutathione_S-Trfase UniProtKB/TrEMBL
  Metaxin UniProtKB/TrEMBL
  Metaxin_GST UniProtKB/TrEMBL
  Sam37/metaxin UniProtKB/TrEMBL
KEGG Report rno:688905 UniProtKB/TrEMBL
NCBI Gene 688905 ENTREZGENE
Pfam GST_C_6 UniProtKB/TrEMBL
  Tom37 UniProtKB/TrEMBL
PhenoGen Mtx3 PhenoGen
PIRSF Metaxin UniProtKB/TrEMBL
Superfamily-SCOP GST_C_like UniProtKB/TrEMBL
UniProt A0A8I6A0M4_RAT UniProtKB/TrEMBL
  D3ZNK1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-09-16 Mtx3  metaxin 3  LOC688905  similar to metaxin 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC688905  similar to metaxin 3      Symbol and Name status set to provisional 70820 PROVISIONAL