Mcts1 (MCTS1, re-initiation and release factor) - Rat Genome Database

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Gene: Mcts1 (MCTS1, re-initiation and release factor) Rattus norvegicus
Analyze
Symbol: Mcts1
Name: MCTS1, re-initiation and release factor
RGD ID: 1566390
Description: Predicted to enable RNA cap binding activity; ribosomal small subunit binding activity; and translation factor activity, non-nucleic acid binding. Predicted to be involved in IRES-dependent viral translational initiation; cytoplasmic translational initiation; and ribosome disassembly. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in immunodeficiency 118. Orthologous to human MCTS1 (MCTS1 re-initiation and release factor); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: malignant T cell amplified sequence 1; malignant T cell-amplified sequence 1; malignant T-cell-amplified sequence 1; MCT-1; MGC112904
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X122,215,602 - 122,228,101 (+)NCBIGRCr8
mRatBN7.2X117,350,723 - 117,362,504 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX117,350,889 - 117,362,504 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX119,449,520 - 119,460,948 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X123,018,531 - 123,029,961 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X120,563,663 - 120,575,063 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X124,894,269 - 124,906,129 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX124,894,466 - 124,906,162 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X124,978,932 - 124,990,624 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X6,764,788 - 6,776,128 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX116,567,429 - 116,578,676 (+)NCBICelera
Cytogenetic MapXq35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA,ISO,ISS)

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:16854843   PMID:20713520   PMID:32160403  


Genomics

Comparative Map Data
Mcts1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X122,215,602 - 122,228,101 (+)NCBIGRCr8
mRatBN7.2X117,350,723 - 117,362,504 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX117,350,889 - 117,362,504 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX119,449,520 - 119,460,948 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X123,018,531 - 123,029,961 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X120,563,663 - 120,575,063 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X124,894,269 - 124,906,129 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX124,894,466 - 124,906,162 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X124,978,932 - 124,990,624 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X6,764,788 - 6,776,128 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX116,567,429 - 116,578,676 (+)NCBICelera
Cytogenetic MapXq35NCBI
MCTS1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X120,604,101 - 120,621,159 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX120,594,010 - 120,621,159 (+)EnsemblGRCh38hg38GRCh38
GRCh37X119,737,956 - 119,755,014 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X119,621,863 - 119,630,270 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X119,519,716 - 119,528,120NCBI
CeleraX120,202,071 - 120,219,337 (+)NCBICelera
Cytogenetic MapXq24NCBI
HuRefX109,209,081 - 109,219,526 (+)NCBIHuRef
HuRefX109,189,067 - 109,206,050 (+)NCBIHuRef
CHM1_1X119,649,376 - 119,666,661 (+)NCBICHM1_1
T2T-CHM13v2.0X118,979,555 - 118,996,612 (+)NCBIT2T-CHM13v2.0
Mcts1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X37,653,682 - 37,702,401 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX37,689,455 - 37,702,303 (+)EnsemblGRCm39 Ensembl
GRCm38X38,600,471 - 38,613,524 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX38,600,578 - 38,613,426 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X35,953,835 - 35,966,699 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X34,845,285 - 34,858,149 (+)NCBIMGSCv36mm8
CeleraX26,246,762 - 26,259,560 (+)NCBICelera
Cytogenetic MapXA3.3NCBI
cM MapX22.88NCBI
Mcts1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555721,272,870 - 1,285,445 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555721,272,870 - 1,285,190 (-)NCBIChiLan1.0ChiLan1.0
MCTS1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X120,158,797 - 120,167,286 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X120,162,470 - 120,179,638 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X109,883,634 - 109,900,840 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X120,070,009 - 120,087,004 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX120,070,009 - 120,078,376 (+)Ensemblpanpan1.1panPan2
MCTS1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X92,559,648 - 92,574,576 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX92,559,899 - 92,570,366 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX78,590,298 - 78,609,158 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X94,305,096 - 94,323,951 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX94,306,181 - 94,318,997 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X91,754,318 - 91,773,178 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X93,516,883 - 93,535,738 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X93,291,758 - 93,310,612 (+)NCBIUU_Cfam_GSD_1.0
Mcts1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X91,545,024 - 91,562,606 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049364799,432,817 - 9,491,615 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100738684
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11065,704,921 - 65,705,734 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21072,133,600 - 72,134,400 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MCTS1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_02366606533,320,595 - 33,329,226 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mcts1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624931518,804 - 530,249 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624931518,925 - 529,996 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Mcts1
45 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:31
Count of miRNA genes:31
Interacting mature miRNAs:31
Transcripts:ENSRNOT00000066677
Prediction methods:Miranda, Pita, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X103312877148312877Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX112934952138400867Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
5685004Bss104Bone structure and strength QTL 1043.9tibia area (VT:1000281)tibia area measurement (CMO:0001382)X113805422126975220Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat

Markers in Region
DXS8324  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X117,362,343 - 117,362,465 (+)MAPPERmRatBN7.2
Rnor_6.0X124,905,969 - 124,906,090NCBIRnor6.0
Rnor_5.0X124,990,464 - 124,990,585UniSTSRnor5.0
RGSC_v3.4X6,764,827 - 6,764,948UniSTSRGSC3.4
CeleraX116,578,516 - 116,578,637UniSTS
Cytogenetic MapXq11UniSTS
RH143993  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X117,358,385 - 117,358,590 (+)MAPPERmRatBN7.2
Rnor_6.0X124,902,011 - 124,902,215NCBIRnor6.0
Rnor_5.0X124,986,506 - 124,986,710UniSTSRnor5.0
RGSC_v3.4X6,768,702 - 6,768,906UniSTSRGSC3.4
CeleraX116,574,575 - 116,574,779UniSTS
Cytogenetic MapXq11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000066677   ⟹   ENSRNOP00000061717
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX117,351,080 - 117,362,500 (+)Ensembl
Rnor_6.0 EnsemblX124,894,706 - 124,906,125 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000080894   ⟹   ENSRNOP00000074032
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX117,350,889 - 117,362,504 (+)Ensembl
Rnor_6.0 EnsemblX124,894,466 - 124,906,162 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000113941   ⟹   ENSRNOP00000090518
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX117,351,500 - 117,362,504 (+)Ensembl
RefSeq Acc Id: NM_001044237   ⟹   NP_001037702
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X122,216,677 - 122,228,101 (+)NCBI
mRatBN7.2X117,351,080 - 117,362,504 (+)NCBI
Rnor_6.0X124,894,706 - 124,906,129 (+)NCBI
Rnor_5.0X124,978,932 - 124,990,624 (+)NCBI
RGSC_v3.4X6,764,788 - 6,776,128 (-)RGD
CeleraX116,567,429 - 116,578,676 (+)RGD
Sequence:
RefSeq Acc Id: XM_006257488   ⟹   XP_006257550
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X122,215,602 - 122,228,101 (+)NCBI
mRatBN7.2X117,350,737 - 117,362,504 (+)NCBI
Rnor_6.0X124,894,269 - 124,906,129 (+)NCBI
Rnor_5.0X124,978,932 - 124,990,624 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039099623   ⟹   XP_038955551
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X122,215,602 - 122,228,101 (+)NCBI
mRatBN7.2X117,350,723 - 117,362,504 (+)NCBI
RefSeq Acc Id: NP_001037702   ⟸   NM_001044237
- UniProtKB: Q4G009 (UniProtKB/Swiss-Prot),   A6JMK9 (UniProtKB/TrEMBL),   A0A8I6ADP8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257550   ⟸   XM_006257488
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000074032   ⟸   ENSRNOT00000080894
Ensembl Acc Id: ENSRNOP00000061717   ⟸   ENSRNOT00000066677
RefSeq Acc Id: XP_038955551   ⟸   XM_039099623
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000090518   ⟸   ENSRNOT00000113941
Protein Domains
PUA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4G009-F1-model_v2 AlphaFold Q4G009 1-182 view protein structure

Transcriptome

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

Promoters
RGD ID:13702000
Promoter ID:EPDNEW_R12523
Type:initiation region
Name:Mcts1_1
Description:MCTS1, re-initiation and release factor
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_6.0X124,894,534 - 124,894,594EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1566390 AgrOrtholog
BioCyc Gene G2FUF-1256 BioCyc
Ensembl Genes ENSRNOG00000002563 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000066677 ENTREZGENE
  ENSRNOT00000066677.2 UniProtKB/Swiss-Prot
  ENSRNOT00000080894 ENTREZGENE
Gene3D-CATH 3.10.400.20 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7379624 IMAGE-MGC_LOAD
InterPro MCT-1/Tma20 UniProtKB/Swiss-Prot
  Pre-PUA UniProtKB/Swiss-Prot
  PUA UniProtKB/Swiss-Prot
  PUA-like_sf UniProtKB/Swiss-Prot
  Uncharacterised_CHP00451 UniProtKB/Swiss-Prot
KEGG Report rno:302500 UniProtKB/Swiss-Prot
MGC_CLONE MGC:112904 IMAGE-MGC_LOAD
NCBI Gene 302500 ENTREZGENE
PANTHER MALIGNANT T-CELL-AMPLIFIED SEQUENCE 1 UniProtKB/Swiss-Prot
  PTHR22798 UniProtKB/Swiss-Prot
Pfam Pre-PUA UniProtKB/Swiss-Prot
  PUA UniProtKB/Swiss-Prot
PhenoGen Mcts1 PhenoGen
PIRSF Tma_RNA-bind_prd UniProtKB/Swiss-Prot
PROSITE PUA UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000002563 RatGTEx
SMART PUA UniProtKB/Swiss-Prot
Superfamily-SCOP SSF88697 UniProtKB/Swiss-Prot
UniProt A0A0G2K724 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ADP8 ENTREZGENE, UniProtKB/TrEMBL
  A6JMK6_RAT UniProtKB/TrEMBL
  A6JMK7 ENTREZGENE, UniProtKB/TrEMBL
  A6JMK8 ENTREZGENE, UniProtKB/TrEMBL
  A6JMK9 ENTREZGENE, UniProtKB/TrEMBL
  MCTS1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-27 Mcts1  MCTS1, re-initiation and release factor  Mcts1  malignant T cell amplified sequence 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Mcts1  malignant T cell amplified sequence 1      Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 Mcts1  malignant T cell amplified sequence 1      Symbol and Name status set to provisional 70820 PROVISIONAL