Mrpl54 (mitochondrial ribosomal protein L54) - Rat Genome Database

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Gene: Mrpl54 (mitochondrial ribosomal protein L54) Rattus norvegicus
Analyze
Symbol: Mrpl54
Name: mitochondrial ribosomal protein L54
RGD ID: 1305694
Description: Predicted to be a structural constituent of ribosome. Predicted to be located in mitochondrion. Predicted to be part of mitochondrial large ribosomal subunit. Orthologous to human MRPL54 (mitochondrial ribosomal protein L54); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 39S ribosomal protein L54, mitochondrial; large ribosomal subunit protein mL54; LOC299628
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr879,103,525 - 9,106,045 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl79,103,525 - 9,106,045 (+)EnsemblGRCr8
mRatBN7.278,452,801 - 8,455,321 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl78,452,716 - 8,455,321 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx711,337,148 - 11,339,518 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0713,212,631 - 13,215,001 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0711,080,199 - 11,082,469 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0711,321,057 - 11,323,577 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl711,321,057 - 11,323,577 (+)Ensemblrn6Rnor6.0
Rnor_5.0711,488,465 - 11,490,985 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.479,936,603 - 9,939,123 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera76,641,125 - 6,643,645 (+)NCBICelera
RGSC_v3.179,936,616 - 9,939,119 (+)NCBI
Cytogenetic Map7q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:18614015   PMID:22681889   PMID:25838379   PMID:28892042  


Genomics

Comparative Map Data
Mrpl54
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr879,103,525 - 9,106,045 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl79,103,525 - 9,106,045 (+)EnsemblGRCr8
mRatBN7.278,452,801 - 8,455,321 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl78,452,716 - 8,455,321 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx711,337,148 - 11,339,518 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0713,212,631 - 13,215,001 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0711,080,199 - 11,082,469 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0711,321,057 - 11,323,577 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl711,321,057 - 11,323,577 (+)Ensemblrn6Rnor6.0
Rnor_5.0711,488,465 - 11,490,985 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.479,936,603 - 9,939,123 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera76,641,125 - 6,643,645 (+)NCBICelera
RGSC_v3.179,936,616 - 9,939,119 (+)NCBI
Cytogenetic Map7q11NCBI
MRPL54
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38193,762,682 - 3,767,565 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl193,762,672 - 3,768,575 (+)Ensemblhg38GRCh38
GRCh37193,762,680 - 3,767,563 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36193,713,665 - 3,718,563 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34193,713,671 - 3,718,555NCBI
Celera193,700,310 - 3,705,207 (+)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef193,527,380 - 3,532,329 (+)NCBIHuRef
CHM1_1193,762,292 - 3,767,188 (+)NCBICHM1_1
T2T-CHM13v2.0193,741,934 - 3,746,816 (+)NCBIT2T-CHM13v2.0
Mrpl54
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391081,100,556 - 81,102,760 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1081,100,547 - 81,102,768 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381081,264,722 - 81,266,926 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1081,264,713 - 81,266,934 (-)Ensemblmm10GRCm38
MGSCv371080,727,467 - 80,729,671 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361080,667,851 - 80,670,055 (-)NCBIMGSCv36mm8
Celera1082,285,070 - 82,287,274 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Mrpl54
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554955,655,560 - 5,657,699 (+)Ensembl
ChiLan1.0NW_0049554955,655,510 - 5,659,103 (+)NCBIChiLan1.0ChiLan1.0
MRPL54
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2208,158,376 - 8,163,105 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1197,390,025 - 7,394,734 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0192,786,348 - 2,791,063 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1193,735,103 - 3,739,571 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl193,735,103 - 3,739,571 (+)EnsemblpanPan2panpan1.1
MRPL54
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12055,709,341 - 55,712,729 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2055,710,281 - 55,712,268 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2055,434,730 - 55,438,201 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02056,369,463 - 56,372,935 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2056,369,522 - 56,372,925 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12055,425,304 - 55,428,772 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02055,907,308 - 55,910,765 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02056,106,043 - 56,109,520 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Mrpl54
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118215,701,434 - 215,703,492 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365882,131,286 - 2,133,341 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365882,131,291 - 2,133,349 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MRPL54
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl274,925,070 - 74,928,167 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1274,925,064 - 74,928,196 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2275,516,538 - 75,519,665 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MRPL54
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.163,518,333 - 3,523,178 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl63,518,028 - 3,523,186 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660814,726,814 - 4,731,747 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mrpl54
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248286,406,083 - 6,409,326 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248286,405,998 - 6,409,721 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Mrpl54
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11153,625,607 - 153,627,798 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Mrpl54
11 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:106
Count of miRNA genes:94
Interacting mature miRNAs:101
Transcripts:ENSRNOT00000027737
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7166965846669658Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)7123748937Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7721609752216097Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)7131777942Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)71104117804Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7170952746709527Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7132612984Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7129716167Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134650782Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7132612984Rat

Markers in Region
RH131643  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.278,453,925 - 8,455,178 (+)MAPPERmRatBN7.2
Rnor_6.0711,322,182 - 11,323,434NCBIRnor6.0
Rnor_5.0711,489,590 - 11,490,842UniSTSRnor5.0
RGSC_v3.479,937,728 - 9,938,980UniSTSRGSC3.4
Celera76,642,250 - 6,643,502UniSTS
RH 3.4 Map2723.6UniSTS
Cytogenetic Map7q11UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000027737   ⟹   ENSRNOP00000027737
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl79,103,525 - 9,106,045 (+)Ensembl
mRatBN7.2 Ensembl78,452,716 - 8,455,321 (+)Ensembl
Rnor_6.0 Ensembl711,321,057 - 11,323,577 (+)Ensembl
RefSeq Acc Id: NM_001106770   ⟹   NP_001100240
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,103,525 - 9,106,045 (+)NCBI
mRatBN7.278,452,801 - 8,455,321 (+)NCBI
Rnor_6.0711,321,057 - 11,323,577 (+)NCBI
Rnor_5.0711,488,465 - 11,490,985 (+)NCBI
RGSC_v3.479,936,603 - 9,939,123 (+)RGD
Celera76,641,125 - 6,643,645 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100240 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL89172 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000027737
  ENSRNOP00000027737.6
RefSeq Acc Id: NP_001100240   ⟸   NM_001106770
- UniProtKB: A6K8A2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000027737   ⟸   ENSRNOT00000027737

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z9K2-F1-model_v2 AlphaFold D3Z9K2 1-135 view protein structure

Transcriptome

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

Promoters
RGD ID:13694980
Promoter ID:EPDNEW_R5505
Type:multiple initiation site
Name:Mrpl54_1
Description:mitochondrial ribosomal protein L54
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_6.0711,321,070 - 11,321,130EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305694 AgrOrtholog
BioCyc Gene G2FUF-35010 BioCyc
Ensembl Genes ENSRNOG00000020464 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027737 ENTREZGENE
  ENSRNOT00000027737.7 UniProtKB/TrEMBL
InterPro Ribosomal_L37_mit UniProtKB/TrEMBL
KEGG Report rno:299628 UniProtKB/TrEMBL
NCBI Gene 299628 ENTREZGENE
PANTHER 39S RIBOSOMAL PROTEIN L54, MITOCHONDRIAL UniProtKB/TrEMBL
  PTHR28595 UniProtKB/TrEMBL
Pfam Ribosomal_L37 UniProtKB/TrEMBL
PhenoGen Mrpl54 PhenoGen
RatGTEx ENSRNOG00000020464 RatGTEx
UniProt A6K8A2 ENTREZGENE, UniProtKB/TrEMBL
  D3Z9K2_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Mrpl54  mitochondrial ribosomal protein L54   Mrpl54_predicted  mitochondrial ribosomal protein L54 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Mrpl54_predicted  mitochondrial ribosomal protein L54 (predicted)      Symbol and Name status set to approved 70820 APPROVED