Rps28 (ribosomal protein S28) - Rat Genome Database
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Gene: Rps28 (ribosomal protein S28) Rattus norvegicus
Analyze
Symbol: Rps28
Name: ribosomal protein S28
RGD ID: 621046
Description: Predicted to be a structural constituent of ribosome. Predicted to be involved in cytoplasmic translation; rRNA processing; and ribosomal small subunit biogenesis. Localizes to 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); PARTICIPATES IN ribosome biogenesis pathway; translation pathway; INTERACTS WITH ammonium chloride; bisphenol A; Brodifacoum.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 40S ribosomal protein S28; LOC691531
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Rps28-ps1  
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2714,607,801 - 14,609,170 (-)NCBI
Rnor_6.0 Ensembl718,682,071 - 18,683,440 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0718,682,071 - 18,683,440 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0718,859,671 - 18,861,040 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4716,319,719 - 16,321,088 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1716,319,739 - 16,321,069 (-)NCBI
Celera713,505,200 - 13,506,569 (-)NCBICelera
Cytogenetic Map7q13NCBI
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

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:8706699   PMID:15632090   PMID:15883184   PMID:18697920   PMID:20458337   PMID:22658674   PMID:22681889   PMID:23376485   PMID:24930395   PMID:24942156   PMID:25957688  


Genomics

Comparative Map Data
Rps28
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2714,607,801 - 14,609,170 (-)NCBI
Rnor_6.0 Ensembl718,682,071 - 18,683,440 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0718,682,071 - 18,683,440 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0718,859,671 - 18,861,040 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4716,319,719 - 16,321,088 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1716,319,739 - 16,321,069 (-)NCBI
Celera713,505,200 - 13,506,569 (-)NCBICelera
Cytogenetic Map7q13NCBI
RPS28
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl198,321,158 - 8,323,340 (+)EnsemblGRCh38hg38GRCh38
GRCh38198,321,496 - 8,323,340 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37198,386,380 - 8,388,224 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36198,292,384 - 8,293,280 (+)NCBINCBI36hg18NCBI36
Build 34198,292,383 - 8,293,278NCBI
Celera198,242,910 - 8,243,806 (+)NCBI
Cytogenetic Map19p13.2NCBI
HuRef198,040,421 - 8,041,317 (+)NCBIHuRef
CHM1_1198,385,886 - 8,386,782 (+)NCBICHM1_1
Rps28
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391734,042,010 - 34,043,536 (-)NCBIGRCm39mm39
GRCm39 Ensembl1734,038,001 - 34,043,536 (-)Ensembl
GRCm381733,823,036 - 33,824,562 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1733,819,027 - 33,824,562 (-)EnsemblGRCm38mm10GRCm38
MGSCv371733,959,981 - 33,961,443 (-)NCBIGRCm37mm9NCBIm37
MGSCv361733,429,010 - 33,430,453 (-)NCBImm8
Celera1736,580,449 - 36,581,911 (-)NCBICelera
Cytogenetic Map17B1NCBI
Rps28
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555631,073,774 - 1,074,077 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555631,073,556 - 1,074,149 (-)NCBIChiLan1.0ChiLan1.0
RPS28
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1198,458,321 - 8,459,250 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl198,458,321 - 8,459,250 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0197,607,197 - 7,608,113 (+)NCBIMhudiblu_PPA_v0panPan3
RPS28
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2052,902,031 - 52,903,244 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12052,901,953 - 52,903,244 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Rps28
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365885,154,614 - 5,155,522 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RPS28
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl270,953,650 - 70,954,765 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1270,953,706 - 70,954,862 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2271,320,395 - 71,321,525 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RPS28
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.167,684,720 - 7,685,597 (+)NCBI
Rps28
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248281,116,016 - 1,116,908 (+)NCBI

Position Markers
RH129344  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0718,681,718 - 18,681,913NCBIRnor6.0
Rnor_5.0718,859,318 - 18,859,513UniSTSRnor5.0
RGSC_v3.4716,319,366 - 16,319,561UniSTSRGSC3.4
Celera713,504,847 - 13,505,042UniSTS
Cytogenetic Map7q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)71232846767193263Rat
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7134147172Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7137009673Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)71268785067801690Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7595196950951969Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)712328467106995532Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)72920071124838025Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)7265313832258115Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7138119654Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7591147750911477Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)71164710256647102Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7134828535Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7134828535Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)71444568559445685Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)71395217958952179Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7975804554758045Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:89
Count of miRNA genes:76
Interacting mature miRNAs:77
Transcripts:ENSRNOT00000045955, ENSRNOT00000068323
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.


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 2 3 2
Medium 1 43 57 41 16 41 8 11 74 35 39 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001105730 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH474088 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209805 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210333 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211223 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216894 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218052 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218290 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221340 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221735 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222499 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222664 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222883 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222945 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223149 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223680 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223841 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228386 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228826 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228989 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229601 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000177 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000068323   ⟹   ENSRNOP00000060568
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl718,682,071 - 18,683,440 (-)Ensembl
RefSeq Acc Id: NM_001105730   ⟹   NP_001099200
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2714,607,801 - 14,609,170 (-)NCBI
Rnor_6.0718,682,071 - 18,683,440 (-)NCBI
Rnor_5.0718,859,671 - 18,861,040 (-)NCBI
RGSC_v3.4716,319,719 - 16,321,088 (-)RGD
Celera713,505,200 - 13,506,569 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001099200 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL86618 (Get FASTA)   NCBI Sequence Viewer  
  P62859 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001099200   ⟸   NM_001105730
- UniProtKB: P62859 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000060568   ⟸   ENSRNOT00000068323

Transcriptome

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

Promoters
RGD ID:13695088
Promoter ID:EPDNEW_R5612
Type:single initiation site
Name:Rps28_1
Description:ribosomal protein S28
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_6.0718,683,433 - 18,683,493EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621046 AgrOrtholog
Ensembl Genes ENSRNOG00000042886 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000060568 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000068323 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro NA-bd_OB-fold UniProtKB/Swiss-Prot
  Ribosomal_S28e UniProtKB/Swiss-Prot
  Ribosomal_S28e_CS UniProtKB/Swiss-Prot
KEGG Report rno:691531 UniProtKB/Swiss-Prot
NCBI Gene 691531 ENTREZGENE
PANTHER PTHR10769 UniProtKB/Swiss-Prot
Pfam Ribosomal_S28e UniProtKB/Swiss-Prot
PhenoGen Rps28 PhenoGen
PROSITE RIBOSOMAL_S28E UniProtKB/Swiss-Prot
Superfamily-SCOP SSF50249 UniProtKB/Swiss-Prot
UniProt P62859 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary P25112 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-12-01 Rps28  ribosomal protein S28  LOC691531  similar to 40S ribosomal protein S28  Data Merged 737654 APPROVED
2006-11-19 LOC691531  similar to 40S ribosomal protein S28      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-02-26 Rps28  ribosomal protein S28      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Rps28  ribosomal protein S28      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_protein 69 amino acids and a molecular weight of 7,836 634041