Mt1m (metallothionein 1M) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Mt1m (metallothionein 1M) Rattus norvegicus
Analyze
Symbol: Mt1m
Name: metallothionein 1M
RGD ID: 2324335
Description: Predicted to enable metal ion binding activity. Predicted to be involved in cellular response to metal ion; detoxification of copper ion; and intracellular zinc ion homeostasis. Predicted to be active in cytoplasm and nucleus. Human ortholog(s) of this gene implicated in carotid stenosis and type 2 diabetes mellitus. Orthologous to several human genes including MT2A (metallothionein 2A); INTERACTS WITH (-)-demecolcine (ortholog); 17beta-estradiol (ortholog); 2,3,7,8-tetrachlorodibenzodioxine (ortholog).
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: INFERRED
Previously known as: hypothetical protein LOC100362623; LOC100362623; metallothionein-2-like
RGD Orthologs
Human
Bonobo
Pig
Alliance Genes
More Info more info ...
Related Functional Gene: Mt2A  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,163,749 - 3,164,121 (+)NCBIGRCr8
mRatBN7.2203,159,037 - 3,159,409 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5119,728,811 - 119,730,073 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0203,677,460 - 3,677,838 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,677,474 - 3,677,847 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,766,674 - 5,767,053 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,324,516 - 3,324,701 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera20586,193 - 586,571 (+)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA)
nucleus  (IBA)

Molecular Function

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
Mt1m
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,163,749 - 3,164,121 (+)NCBIGRCr8
mRatBN7.2203,159,037 - 3,159,409 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5119,728,811 - 119,730,073 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0203,677,460 - 3,677,838 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,677,474 - 3,677,847 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,766,674 - 5,767,053 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,324,516 - 3,324,701 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera20586,193 - 586,571 (+)NCBICelera
Cytogenetic Map20p12NCBI
MT1HL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381237,004,103 - 237,004,441 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1237,004,103 - 237,004,441 (-)EnsemblGRCh38hg38GRCh38
GRCh371237,167,403 - 237,167,741 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361235,233,975 - 235,242,240 (-)NCBINCBI36Build 36hg18NCBI36
Celera1210,416,664 - 210,417,060 (-)NCBICelera
Cytogenetic Map1q43NCBI
HuRef1207,623,439 - 207,623,754 (-)NCBIHuRef
CHM1_11238,439,725 - 238,440,040 (-)NCBICHM1_1
T2T-CHM13v2.01236,415,116 - 236,415,454 (-)NCBIT2T-CHM13v2.0
MT1HL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2112,145,391 - 12,147,843 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1112,363,969 - 12,366,366 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01212,568,334 - 212,568,824 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11217,566,173 - 217,566,475 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1217,566,250 - 217,566,435 (-)Ensemblpanpan1.1panPan2
MT1D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1618,650,985 - 18,652,317 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1

Variants

.
Variants in Mt1m
7 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:32
Count of miRNA genes:32
Interacting mature miRNAs:32
Transcripts:ENSRNOT00000047663
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724519Bp144Blood pressure QTL 1440.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2013624629Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
61448Ciaa1CIA Autoantibody QTL 1300.001blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)2026463954597031Rat
61472Aia1Adjuvant induced arthritis QTL 1180.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2026463954597031Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat


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 8 8
Low 4 14 13 1 13 21 17
Below cutoff 1 6 10 6 8 6 3 3 18 12 15 2 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000047663   ⟹   ENSRNOP00000041060
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5119,728,811 - 119,730,073 (+)Ensembl
Rnor_6.0 Ensembl203,677,474 - 3,677,847 (+)Ensembl
RefSeq Acc Id: XM_002728917   ⟹   XP_002728963
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,159,023 - 3,159,401 (+)NCBI
Rnor_6.0203,677,460 - 3,677,838 (+)NCBI
Rnor_5.0205,766,674 - 5,767,053 (+)NCBI
RGSC_v3.4203,324,516 - 3,324,701 (+)RGD
Sequence:
Protein Sequences
Ensembl Protein ENSRNOP00000041060.3
Reference Protein Sequences
RefSeq Acc Id: XP_002728963   ⟸   XM_002728917
- Sequence:
RefSeq Acc Id: ENSRNOP00000041060   ⟸   ENSRNOT00000047663

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZHV3-F1-model_v2 AlphaFold D3ZHV3 1-61 view protein structure

Transcriptome

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

Promoters
RGD ID:13701313
Promoter ID:EPDNEW_R11834
Type:single initiation site
Name:Mt1m_1
Description:metallothionein 1M
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_6.0203,677,474 - 3,677,534EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2324335 AgrOrtholog
BioCyc Gene G2FUF-4757 BioCyc
Ensembl Genes ENSRNOG00000028841 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000043098 Ensembl
Ensembl Transcript ENSRNOT00000047663.5 UniProtKB/TrEMBL
NCBI Gene 100362623 ENTREZGENE
PhenoGen Mt1m PhenoGen
RatGTEx ENSRNOG00000028841 RatGTEx
  ENSRNOG00000043098 RatGTEx
UniProt D3ZHV3_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-07 Mt1m  metallothionein 1M  LOC100362623  hypothetical protein LOC100362623  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-06 LOC100362623  hypothetical protein LOC100362623      Symbol and Name status set to provisional 70820 PROVISIONAL