Mrpl28 (mitochondrial ribosomal protein L28) - Rat Genome Database

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Gene: Mrpl28 (mitochondrial ribosomal protein L28) Rattus norvegicus
Analyze
Symbol: Mrpl28
Name: mitochondrial ribosomal protein L28
RGD ID: 1583741
Description: Predicted to be a structural constituent of ribosome. Predicted to be located in cytosol and mitochondrial ribosome. Predicted to be part of mitochondrial large ribosomal subunit. Orthologous to human MRPL28 (mitochondrial ribosomal protein L28); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 39S ribosomal protein L28, mitochondrial; large ribosomal subunit protein bL28m; LOC497876; similar to 39S ribosomal protein L28, mitochondrial precursor (L28mt) (MRP-L28)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Mrpl28em1Mcwi  
Genetic Models: LEW-Mrpl28em1Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81015,653,006 - 15,656,062 (+)NCBIGRCr8
mRatBN7.21015,148,698 - 15,151,581 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1015,148,681 - 15,151,581 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1019,888,307 - 19,891,192 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01019,377,186 - 19,380,071 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01014,876,601 - 14,879,486 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01015,495,616 - 15,498,527 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1015,495,684 - 15,498,295 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01015,309,316 - 15,312,227 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41015,394,360 - 15,397,270 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1014,816,648 - 14,819,559 (+)NCBICelera
Cytogenetic Map10q12NCBI
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

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:18614015   PMID:20601428   PMID:22658674   PMID:25278503   PMID:28892042  


Genomics

Comparative Map Data
Mrpl28
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81015,653,006 - 15,656,062 (+)NCBIGRCr8
mRatBN7.21015,148,698 - 15,151,581 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1015,148,681 - 15,151,581 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1019,888,307 - 19,891,192 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01019,377,186 - 19,380,071 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01014,876,601 - 14,879,486 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01015,495,616 - 15,498,527 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1015,495,684 - 15,498,295 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01015,309,316 - 15,312,227 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41015,394,360 - 15,397,270 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1014,816,648 - 14,819,559 (+)NCBICelera
Cytogenetic Map10q12NCBI
MRPL28
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3816366,969 - 370,538 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl16366,969 - 371,289 (-)EnsemblGRCh38hg38GRCh38
GRCh3716416,969 - 420,538 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3616357,397 - 360,541 (-)NCBINCBI36Build 36hg18NCBI36
Build 3416357,396 - 360,541NCBI
Celera16617,353 - 621,092 (-)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef16335,778 - 339,611 (-)NCBIHuRef
CHM1_116417,493 - 420,654 (-)NCBICHM1_1
T2T-CHM13v2.016361,841 - 366,186 (-)NCBIT2T-CHM13v2.0
Mrpl28
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391726,342,477 - 26,345,587 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1726,342,474 - 26,345,587 (+)EnsemblGRCm39 Ensembl
GRCm381726,123,503 - 26,126,613 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1726,123,500 - 26,126,613 (+)EnsemblGRCm38mm10GRCm38
MGSCv371726,260,448 - 26,263,558 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361725,851,132 - 25,854,213 (+)NCBIMGSCv36mm8
Celera1726,657,249 - 26,660,369 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1713.07NCBI
Mrpl28
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544216,831,913 - 16,834,878 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544216,831,641 - 16,835,133 (+)NCBIChiLan1.0ChiLan1.0
MRPL28
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v218593,991 - 598,244 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1164,384,774 - 4,388,553 (-)NCBINHGRI_mPanPan1
PanPan1.116358,376 - 361,566 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl16358,376 - 361,460 (-)Ensemblpanpan1.1panPan2
MRPL28
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1640,146,050 - 40,148,024 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl640,145,793 - 40,148,004 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha641,409,326 - 41,411,309 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0640,488,057 - 40,490,036 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1640,176,371 - 40,178,348 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0640,136,584 - 40,138,562 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0640,615,855 - 40,617,832 (+)NCBIUU_Cfam_GSD_1.0
Mrpl28
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344112,482,944 - 112,485,680 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936501580,932 - 583,271 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936501580,863 - 583,540 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MRPL28
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl341,329,928 - 41,334,451 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1341,330,412 - 41,333,520 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2341,094,504 - 41,097,526 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MRPL28
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.15308,141 - 311,442 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl5308,442 - 310,934 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606830,861,384 - 30,865,047 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mrpl28
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249131,206,808 - 1,209,374 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249131,206,459 - 1,209,695 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Mrpl28
20 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:40
Count of miRNA genes:37
Interacting mature miRNAs:40
Transcripts:ENSRNOT00000027662
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
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402717245662Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402719233348Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10615418215990232Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat

Markers in Region
AW490096  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21015,147,280 - 15,147,376 (+)MAPPERmRatBN7.2
Rnor_6.01015,494,227 - 15,494,322NCBIRnor6.0
Rnor_5.01015,307,927 - 15,308,022UniSTSRnor5.0
RGSC_v3.41015,392,970 - 15,393,065UniSTSRGSC3.4
Celera1014,815,259 - 14,815,354UniSTS
Cytogenetic Map10q12UniSTS


Genetic Models
This gene Mrpl28 is modified in the following models/strains:
LEW-Mrpl28em1Mcwi    


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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000027662   ⟹   ENSRNOP00000027662
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1015,148,681 - 15,151,581 (+)Ensembl
Rnor_6.0 Ensembl1015,495,684 - 15,498,295 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118804   ⟹   ENSRNOP00000092585
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1015,148,681 - 15,151,577 (+)Ensembl
RefSeq Acc Id: NM_001398816   ⟹   NP_001385745
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81015,653,179 - 15,656,062 (+)NCBI
mRatBN7.21015,148,698 - 15,151,581 (+)NCBI
RefSeq Acc Id: XM_063269587   ⟹   XP_063125657
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81015,653,006 - 15,656,062 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001385745 (Get FASTA)   NCBI Sequence Viewer  
  XP_063125657 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM03994 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000027662
  ENSRNOP00000027662.5
  ENSRNOP00000092585.1
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000027662   ⟸   ENSRNOT00000027662
RefSeq Acc Id: ENSRNOP00000092585   ⟸   ENSRNOT00000118804
RefSeq Acc Id: NP_001385745   ⟸   NM_001398816
- UniProtKB: D3ZJY1 (UniProtKB/TrEMBL),   A6HD89 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063125657   ⟸   XM_063269587
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZJY1-F1-model_v2 AlphaFold D3ZJY1 1-257 view protein structure

Transcriptome

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

Promoters
RGD ID:13697077
Promoter ID:EPDNEW_R7596
Type:multiple initiation site
Name:Mrpl28_1
Description:mitochondrial ribosomal protein L28
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_6.01015,495,644 - 15,495,704EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583741 AgrOrtholog
BioCyc Gene G2FUF-25728 BioCyc
Ensembl Genes ENSRNOG00000042720 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027662 ENTREZGENE
  ENSRNOT00000027662.8 UniProtKB/TrEMBL
  ENSRNOT00000118804.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.170.40 UniProtKB/TrEMBL
InterPro L28p-like UniProtKB/TrEMBL
  Ribo_L28/L24 UniProtKB/TrEMBL
  Ribo_L28/L24_sf UniProtKB/TrEMBL
KEGG Report rno:497876 UniProtKB/TrEMBL
NCBI Gene 497876 ENTREZGENE
PANTHER 39S RIBOSOMAL PROTEIN L28, MITOCHONDRIAL UniProtKB/TrEMBL
  PTHR13528 UniProtKB/TrEMBL
Pfam Ribosomal_L28 UniProtKB/TrEMBL
PhenoGen Mrpl28 PhenoGen
RatGTEx ENSRNOG00000042720 RatGTEx
Superfamily-SCOP SSF143800 UniProtKB/TrEMBL
UniProt A0A8I6AFT9_RAT UniProtKB/TrEMBL
  A6HD89 ENTREZGENE, UniProtKB/TrEMBL
  D3ZJY1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-05 Mrpl28  mitochondrial ribosomal protein L28  LOC497876  similar to 39S ribosomal protein L28, mitochondrial precursor (L28mt) (MRP-L28)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC497876  similar to 39S ribosomal protein L28, mitochondrial precursor (L28mt) (MRP-L28)      Symbol and Name status set to provisional 70820 PROVISIONAL