Mrpl39 (mitochondrial ribosomal protein L39) - Rat Genome Database

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Gene: Mrpl39 (mitochondrial ribosomal protein L39) Rattus norvegicus
Analyze
Symbol: Mrpl39
Name: mitochondrial ribosomal protein L39
RGD ID: 1591507
Description: Predicted to enable nucleotide binding activity. Predicted to be part of mitochondrial large ribosomal subunit. Predicted to be active in mitochondrion. Human ortholog(s) of this gene implicated in combined oxidative phosphorylation deficiency. Orthologous to human MRPL39 (mitochondrial ribosomal protein L39); INTERACTS WITH bisphenol A; finasteride; flutamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 39S ribosomal protein L39, mitochondrial; large ribosomal subunit protein mL39; LOC684304; similar to Mitochondrial 39S ribosomal protein L39 (L39mt) (MRP-L39)
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
GRCr81137,266,116 - 37,281,612 (-)NCBIGRCr8
mRatBN7.21123,779,655 - 23,795,146 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1123,779,662 - 23,795,125 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1132,486,030 - 32,501,397 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01125,186,429 - 25,201,799 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01124,375,135 - 24,390,505 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01124,181,605 - 24,200,022 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1124,181,658 - 24,199,968 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01127,815,360 - 27,830,427 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1123,619,235 - 23,634,673 (-)NCBICelera
Cytogenetic Map11q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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:14651853   PMID:18614015   PMID:22658674   PMID:25278503   PMID:28892042  


Genomics

Comparative Map Data
Mrpl39
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81137,266,116 - 37,281,612 (-)NCBIGRCr8
mRatBN7.21123,779,655 - 23,795,146 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1123,779,662 - 23,795,125 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1132,486,030 - 32,501,397 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01125,186,429 - 25,201,799 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01124,375,135 - 24,390,505 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01124,181,605 - 24,200,022 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1124,181,658 - 24,199,968 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01127,815,360 - 27,830,427 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1123,619,235 - 23,634,673 (-)NCBICelera
Cytogenetic Map11q11NCBI
MRPL39
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382125,585,656 - 25,607,859 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2125,585,656 - 25,607,517 (-)EnsemblGRCh38hg38GRCh38
GRCh372126,957,968 - 26,979,793 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362125,879,839 - 25,901,672 (-)NCBINCBI36Build 36hg18NCBI36
Build 342125,879,840 - 25,901,672NCBI
Celera2112,141,379 - 12,163,216 (-)NCBICelera
Cytogenetic Map21q21.3NCBI
HuRef2112,361,043 - 12,382,878 (-)NCBIHuRef
CHM1_12126,518,616 - 26,540,450 (-)NCBICHM1_1
T2T-CHM13v2.02123,943,220 - 23,965,426 (-)NCBIT2T-CHM13v2.0
Mrpl39
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391684,515,068 - 84,532,261 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1684,514,464 - 84,532,630 (-)EnsemblGRCm39 Ensembl
GRCm381684,718,281 - 84,735,244 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1684,717,576 - 84,735,742 (-)EnsemblGRCm38mm10GRCm38
MGSCv371684,718,526 - 84,735,426 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361684,600,170 - 84,617,815 (-)NCBIMGSCv36mm8
Celera1684,922,354 - 84,939,237 (-)NCBICelera
Cytogenetic Map16C3.3NCBI
cM Map1646.92NCBI
Mrpl39
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540725,474,899 - 25,491,634 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540725,474,843 - 25,491,114 (-)NCBIChiLan1.0ChiLan1.0
MRPL39
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22221,780,176 - 21,802,306 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12116,634,142 - 16,659,128 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02112,027,383 - 12,052,370 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12125,388,661 - 25,410,491 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2125,388,661 - 25,410,490 (-)Ensemblpanpan1.1panPan2
MRPL39
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13121,089,747 - 21,110,975 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3121,084,428 - 21,110,946 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3121,149,017 - 21,170,268 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03121,143,823 - 21,164,855 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3121,142,594 - 21,164,789 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13121,162,531 - 21,183,449 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03121,163,606 - 21,184,634 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03121,638,587 - 21,660,585 (-)NCBIUU_Cfam_GSD_1.0
Mrpl39
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497121,648,133 - 21,665,639 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366402,016,079 - 2,033,252 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366402,015,978 - 2,033,423 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MRPL39
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13189,148,603 - 189,167,880 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113189,148,711 - 189,166,302 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213199,001,550 - 199,019,168 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MRPL39
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1266,666,083 - 66,902,386 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl266,666,728 - 66,686,353 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605086,649,822 - 86,887,699 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mrpl39
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474513,615,264 - 13,630,202 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474513,615,211 - 13,630,328 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Mrpl39
35 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:100
Count of miRNA genes:80
Interacting mature miRNAs:82
Transcripts:ENSRNOT00000074032
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
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11135331169Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
10755497Bp388Blood pressure QTL 3882.76arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)111945620576331918Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111647204744285911Rat
2290451Scl58Serum cholesterol level QTL 583.48blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)111283104625121472Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
1600394Edcs1Endometrial carcinoma susceptibility QTL12.90.04uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)111897620824697116Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat


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: ENSRNOT00000074032   ⟹   ENSRNOP00000065042
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1123,779,662 - 23,795,125 (-)Ensembl
Rnor_6.0 Ensembl1124,181,658 - 24,199,968 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000100377   ⟹   ENSRNOP00000090253
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1123,783,755 - 23,795,125 (-)Ensembl
RefSeq Acc Id: NM_001398882   ⟹   NP_001385811
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81137,266,116 - 37,281,544 (-)NCBI
mRatBN7.21123,779,655 - 23,795,085 (-)NCBI
RefSeq Acc Id: XM_039088767   ⟹   XP_038944695
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81137,266,116 - 37,281,612 (-)NCBI
mRatBN7.21123,779,655 - 23,795,146 (-)NCBI
RefSeq Acc Id: XM_063270766   ⟹   XP_063126836
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81137,271,060 - 37,281,612 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001385811 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944695 (Get FASTA)   NCBI Sequence Viewer  
  XP_063126836 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM10620 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000065042.3
  ENSRNOP00000090253.1
Ensembl Acc Id: ENSRNOP00000065042   ⟸   ENSRNOT00000074032
RefSeq Acc Id: XP_038944695   ⟸   XM_039088767
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000090253   ⟸   ENSRNOT00000100377
RefSeq Acc Id: NP_001385811   ⟸   NM_001398882
- UniProtKB: A6JL56 (UniProtKB/TrEMBL),   A0A8I6A9P7 (UniProtKB/TrEMBL),   M0R6J0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063126836   ⟸   XM_063270766
- Peptide Label: isoform X2
Protein Domains
TGS

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R6J0-F1-model_v2 AlphaFold M0R6J0 1-336 view protein structure

Transcriptome

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

Promoters
RGD ID:13698018
Promoter ID:EPDNEW_R8538
Type:multiple initiation site
Name:Mrpl39_1
Description:39S ribosomal protein L39, mitochondrial
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_6.01124,199,984 - 24,200,044EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1591507 AgrOrtholog
BioCyc Gene G2FUF-22085 BioCyc
Ensembl Genes ENSRNOG00000047563 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074032.3 UniProtKB/TrEMBL
  ENSRNOT00000100377.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.20.30 UniProtKB/TrEMBL
  Threonyl-trna Synthetase, Chain A, domain 2 UniProtKB/TrEMBL
InterPro Beta-grasp_dom_sf UniProtKB/TrEMBL
  Pro-tRNA_synthetase UniProtKB/TrEMBL
  TGS UniProtKB/TrEMBL
  TGS-like UniProtKB/TrEMBL
  Thr/Ala-tRNA-synth_IIc_edit UniProtKB/TrEMBL
NCBI Gene 684304 ENTREZGENE
PANTHER 39S RIBOSOMAL PROTEIN L39, MITOCHONDRIAL UniProtKB/TrEMBL
  MITOCHONDRIAL RIBOSOME PROTEIN L39/PROLYL-TRNA LIGASE FAMILY MEMBER UniProtKB/TrEMBL
PhenoGen Mrpl39 PhenoGen
PROSITE TGS UniProtKB/TrEMBL
RatGTEx ENSRNOG00000047563 RatGTEx
Superfamily-SCOP SSF55186 UniProtKB/TrEMBL
  SSF81271 UniProtKB/TrEMBL
UniProt A0A8I6A9P7 ENTREZGENE, UniProtKB/TrEMBL
  A6JL56 ENTREZGENE, UniProtKB/TrEMBL
  M0R6J0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-13 Mrpl39  mitochondrial ribosomal protein L39  LOC684304  similar to Mitochondrial 39S ribosomal protein L39 (L39mt) (MRP-L39)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-13 Mrpl39  mitochondrial ribosomal protein L39  Mrpl39  mitochondrial ribosomal protein L39  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC684304  similar to Mitochondrial 39S ribosomal protein L39 (L39mt) (MRP-L39)      Symbol and Name status set to provisional 70820 PROVISIONAL