Rps28-ps5 (ribosomal protein S28, pseudogene 5) - Rat Genome Database

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Gene: Rps28-ps5 (ribosomal protein S28, pseudogene 5) Rattus norvegicus
Analyze
Symbol: Rps28-ps5 (Ensembl: LOC108352861)
Name: ribosomal protein S28, pseudogene 5 (Ensembl:40S ribosomal protein S28 pseudogene)
RGD ID: 11455995
Description: Predicted to be a structural constituent of ribosome. Predicted to be involved in translation. Predicted to be located in ribosome. Predicted to be part of ribonucleoprotein complex.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: 40S ribosomal protein S28 pseudogene; 40S ribosomal protein S28-like; LOC108352861; ribosomal protein S28 like 2; Rps28l2; small ribosomal subunit protein eS28-like
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81499,138,829 - 99,139,171 (+)NCBIGRCr8
mRatBN7.21494,937,477 - 94,937,817 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1494,937,482 - 94,937,815 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.014104,987,686 - 104,987,995 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14104,987,709 - 104,987,918 (+)EnsemblRnor6.0rn6Rnor6.0
Celera1493,952,441 - 93,952,774 (+)NCBICelera
Cytogenetic Map14q22NCBI
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. 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.

Genomics

Variants

.
Variants in Rps28-ps5
5 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:93
Count of miRNA genes:85
Interacting mature miRNAs:89
Transcripts:ENSRNOT00000043218
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1470053989104886043Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147341532395876975Rat
631213Bw60Body weight QTL604.51retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)147995092195876975Rat
4889951Bss92Bone structure and strength QTL 923.9tibia area (VT:1000281)tibia-fibula cortical bone total cross-sectional area (CMO:0001721)148205747195876975Rat
1582201Sffal2Serum free fatty acids level QTL 240.0002blood free fatty acid amount (VT:0001553)serum free fatty acids level (CMO:0000547)149255388695876975Rat


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 musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 1 19 9 9 3 9 2 11 5 15
Below cutoff 8 9 8 8 22 18 11 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000043218
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1494,937,482 - 94,937,815 (+)Ensembl
Rnor_6.0 Ensembl14104,987,709 - 104,987,918 (+)Ensembl
RefSeq Acc Id: XM_039092871   ⟹   XP_038948799
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81499,138,829 - 99,139,171 (+)NCBI
mRatBN7.21494,937,477 - 94,937,817 (+)NCBI
Protein Sequences
Protein RefSeqs XP_038948799 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000039276.4
  ENSRNOP00000095803
  ENSRNOP00000095803.1
Reference Protein Sequences
RefSeq Acc Id: XP_038948799   ⟸   XM_039092871
- UniProtKB: A0A8I6APW3 (UniProtKB/TrEMBL),   A0A0A0MY14 (UniProtKB/TrEMBL)

Transcriptome

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


Additional Information

Database Acc Id Source(s)
BioCyc Gene G2FUF-14849 BioCyc
Ensembl Genes ENSRNOG00000029052 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000046342 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000043218.4 UniProtKB/TrEMBL
  ENSRNOT00000045955.5 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.140 UniProtKB/TrEMBL
InterPro NA-bd_OB-fold UniProtKB/TrEMBL
  Ribosomal_S28e UniProtKB/TrEMBL
  Ribosomal_S28e_CS UniProtKB/TrEMBL
KEGG Report rno:100359503 UniProtKB/TrEMBL
NCBI Gene LOC108352861 ENTREZGENE
PANTHER 40S RIBOSOMAL PROTEIN S28 UniProtKB/TrEMBL
  PTHR10769 UniProtKB/TrEMBL
Pfam Ribosomal_S28e UniProtKB/TrEMBL
PhenoGen Rps28-ps5 PhenoGen
PROSITE RIBOSOMAL_S28E UniProtKB/TrEMBL
RatGTEx ENSRNOG00000029052 RatGTEx
  ENSRNOG00000046342 RatGTEx
Superfamily-SCOP SSF50249 UniProtKB/TrEMBL
UniProt A0A0A0MY14 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6APW3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-12-01 Rps28-ps5  ribosomal protein S28, pseudogene 5  Rps28l2  ribosomal protein S28 like 2  Name and Symbol changed 629549 APPROVED
2023-10-16 Rps28l2  ribosomal protein S28 like 2  Rps28l1  ribosomal protein S28 like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2023-09-19 Rps28l1  ribosomal protein S28 like 1  LOC108352861  40S ribosomal protein S28 pseudogene  Symbol and Name Changed 1299863 APPROVED
2016-08-02 LOC108352861  40S ribosomal protein S28 pseudogene      Symbol and Name status set to provisional 70820 PROVISIONAL