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
No known orthologs.
Symbol: Rps28-ps5 (Ensembl: Rps28-ps3)
Name: ribosomal protein S28, pseudogene 5 (Ensembl:ribosomal protein S28, pseudogene 3)
RGD ID: 11455995
Description: Predicted to be a structural constituent of ribosome. Predicted to be involved in maturation of SSU-rRNA and ribosomal small subunit assembly. Predicted to be part of cytosolic small ribosomal subunit. Human ortholog(s) of this gene implicated in Diamond-Blackfan anemia 15 with mandibulofacial dysostosis. Orthologous to human RPS28 (ribosomal protein S28).
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
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81499,138,829 - 99,139,171 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1499,138,850 - 99,139,059 (+)EnsemblGRCr8
GRCr8 Ensembl1672,591,164 - 72,591,373 (+)EnsemblGRCr8
mRatBN7.21494,937,477 - 94,937,817 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1494,937,482 - 94,937,815 (+)EnsemblmRatBN7.2
mRatBN7.2 Ensembl1665,888,416 - 65,888,625 (+)EnsemblmRatBN7.2
Rnor_6.014104,987,686 - 104,987,995 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14104,987,709 - 104,987,918 (+)Ensemblrn6Rnor6.0
Celera1493,952,441 - 93,952,774 (+)NCBICelera
Cytogenetic Map14q22NCBI
JBrowse:




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
3 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1582201Sffal2Serum free fatty acids level QTL 240.0002blood free fatty acid amount (VT:0001553)serum free fatty acids level (CMO:0000547)1496755448100078267Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1459848686104848686Rat
631213Bw60Body weight QTL604.51retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)1484164970100078267Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1477914838104348525Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1474255551109089856Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1462398852107398852Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1477640071100078267Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1460854936105854936Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1474255551109089856Rat
4889951Bss92Bone structure and strength QTL 923.9tibia area (VT:1000281)tibia-fibula cortical bone total cross-sectional area (CMO:0001721)1486271332100078267Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1459848686104848686Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144261625899224555Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)146592028399224555Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
10 3 46 80 26 24 21 70 21 222 127 7 80 64 61 3 10 10

Sequence


Ensembl Acc Id: ENSRNOT00000043218
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1499,138,850 - 99,139,059 (+)Ensembl
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
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)
AGR Gene RGD:11455995 AgrOrtholog
BioCyc Gene G2FUF-14849 BioCyc
Ensembl Genes ENSRNOG00000029052 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000046342 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000043218 ENTREZGENE
  ENSRNOT00000043218.5 UniProtKB/TrEMBL
  ENSRNOT00000045955.6 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
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