Rpl41 (ribosomal protein L41) - Rat Genome Database

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Gene: Rpl41 (ribosomal protein L41) Rattus norvegicus
Analyze
Symbol: Rpl41
Name: ribosomal protein L41
RGD ID: 621210
Description: Predicted to enable mRNA 3'-UTR binding activity and mRNA 5'-UTR binding activity. Predicted to be a structural constituent of ribosome. Predicted to be involved in cytoplasmic translation. Predicted to be located in endoplasmic reticulum. Predicted to be part of cytosolic large ribosomal subunit. Orthologous to human RPL41 (ribosomal protein L41); INTERACTS WITH 1,3,5-trinitro-1,3,5-triazinane; 2,3,7,8-tetrachlorodibenzodioxine; aflatoxin B1.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 60S ribosomal protein L41; large ribosomal subunit protein eL41; small ribosomal subunit protein eS32
RGD Orthologs
Human
Mouse
Bonobo
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Rpl41-ps1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr871,562,417 - 1,563,497 (-)NCBIGRCr8
mRatBN7.27977,885 - 978,965 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx73,739,994 - 3,741,074 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.075,615,985 - 5,617,065 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.075,913,600 - 5,914,680 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.072,972,897 - 2,973,977 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl72,972,900 - 2,973,977 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.072,946,525 - 2,947,605 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.471,839,972 - 1,840,963 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.171,839,971 - 1,840,963 (-)NCBI
Celera7848,464 - 849,544 (-)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. The primary structures of rat ribosomal proteins L4 and L41. Chan YL, etal., Biochem Biophys Res Commun 1995 Sep 25;214(3):810-8.
2. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:12962325   PMID:16213212   PMID:25957688  


Genomics

Comparative Map Data
Rpl41
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr871,562,417 - 1,563,497 (-)NCBIGRCr8
mRatBN7.27977,885 - 978,965 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx73,739,994 - 3,741,074 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.075,615,985 - 5,617,065 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.075,913,600 - 5,914,680 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.072,972,897 - 2,973,977 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl72,972,900 - 2,973,977 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.072,946,525 - 2,947,605 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.471,839,972 - 1,840,963 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.171,839,971 - 1,840,963 (-)NCBI
Celera7848,464 - 849,544 (-)NCBICelera
Cytogenetic Map7q11NCBI
RPL41
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381256,116,633 - 56,117,967 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1256,116,590 - 56,117,967 (+)EnsemblGRCh38hg38GRCh38
GRCh371256,510,417 - 56,511,751 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361254,796,641 - 54,797,883 (+)NCBINCBI36Build 36hg18NCBI36
Build 341254,796,640 - 54,797,882NCBI
Celera1256,162,519 - 56,163,761 (+)NCBICelera
Cytogenetic Map12q13.2NCBI
HuRef1253,549,507 - 53,550,749 (+)NCBIHuRef
CHM1_11256,477,739 - 56,478,981 (+)NCBICHM1_1
T2T-CHM13v2.01256,084,231 - 56,085,565 (+)NCBIT2T-CHM13v2.0
Rpl41
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910128,383,979 - 128,385,037 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10128,383,983 - 128,385,174 (-)EnsemblGRCm39 Ensembl
GRCm3810128,548,110 - 128,549,168 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10128,548,114 - 128,549,305 (-)EnsemblGRCm38mm10GRCm38
MGSCv3710127,985,166 - 127,986,224 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3610127,951,066 - 127,952,065 (-)NCBIMGSCv36mm8
Celera10130,940,061 - 130,941,119 (-)NCBICelera
Cytogenetic Map10D3NCBI
cM Map1077.04NCBI
RPL41
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21038,213,886 - 38,215,089 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11238,210,654 - 38,211,856 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01232,797,176 - 32,798,407 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11233,047,799 - 33,049,040 (-)NCBIpanpan1.1PanPan1.1panPan2

Variants

.
Variants in Rpl41
3 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:86
Count of miRNA genes:70
Interacting mature miRNAs:80
Transcripts:ENSRNOT00000066159
Prediction methods:Microtar, 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
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat


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 3 35 46 33 19 33 1 2 60 34 41 11 1
Medium 8 11 8 8 7 9 14 1 7
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_139083 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC128207 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC058445 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC076376 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC099836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC126080 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC157821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474104 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211334 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217332 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221387 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221514 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221865 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222058 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222435 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222632 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222800 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222813 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228513 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229533 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X82550 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000066159   ⟹   ENSRNOP00000062398
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl72,972,900 - 2,973,977 (-)Ensembl
RefSeq Acc Id: NM_139083   ⟹   NP_620783
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,562,417 - 1,563,497 (-)NCBI
mRatBN7.27977,885 - 978,965 (-)NCBI
Rnor_6.072,972,897 - 2,973,977 (-)NCBI
Rnor_5.072,946,525 - 2,947,605 (-)NCBI
RGSC_v3.471,839,972 - 1,840,963 (-)RGD
Celera7848,464 - 849,544 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_620783   ⟸   NM_139083
- UniProtKB: P62948 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000062398   ⟸   ENSRNOT00000066159

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P62948-F1-model_v2 AlphaFold P62948 1-25 view protein structure

Transcriptome

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

Promoters
RGD ID:13694943
Promoter ID:EPDNEW_R5468
Type:initiation region
Name:Rpl41_1
Description:ribosomal protein L41
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_6.072,973,930 - 2,973,990EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621210 AgrOrtholog
BioCyc Gene G2FUF-35352 BioCyc
Ensembl Genes ENSRNOG00000042233 Ensembl
InterPro Ribosomal_L41 UniProtKB/Swiss-Prot
KEGG Report rno:124440 UniProtKB/Swiss-Prot
NCBI Gene 124440 ENTREZGENE
Pfam Ribosomal_L41 UniProtKB/Swiss-Prot
PhenoGen Rpl41 PhenoGen
RatGTEx ENSRNOG00000042233 RatGTEx
UniProt A6KSF2_RAT UniProtKB/TrEMBL
  A6KSF3_RAT UniProtKB/TrEMBL
  A6KSF4_RAT UniProtKB/TrEMBL
  P62948 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary P28751 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Rpl41  ribosomal protein L41      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Rpl41  ribosomal protein L41      Symbol and Name status set to provisional 70820 PROVISIONAL