Rps27a (ribosomal protein S27a) - Rat Genome Database

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Gene: Rps27a (ribosomal protein S27a) Rattus norvegicus
Analyze
Symbol: Rps27a
Name: ribosomal protein S27a
RGD ID: 6489478
Description: Predicted to have protein tag and ubiquitin protein ligase binding activity. Predicted to be involved in modification-dependent protein catabolic process and protein ubiquitination. Localizes to cytosolic small ribosomal subunit. Orthologous to human RPS27A (ribosomal protein S27a); PARTICIPATES IN ribosome biogenesis pathway; translation pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; aflatoxin B1.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LOC100912032; ubiquitin carboxyl extension protein 80; ubiquitin-40S ribosomal protein S27a; ubiquitin-40S ribosomal protein S27a-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: LOC105650978   Rps27a-ps1   Rps27a-ps10   Rps27a-ps11   Rps27a-ps13   Rps27a-ps14   Rps27a-ps15   Rps27a-ps16   Rps27a-ps17   Rps27a-ps18   Rps27a-ps19   Rps27a-ps2   Rps27a-ps20   Rps27a-ps21   Rps27a-ps22   Rps27a-ps23   Rps27a-ps24   Rps27a-ps25   Rps27a-ps26   Rps27a-ps27   Rps27a-ps28   Rps27a-ps29   Rps27a-ps3   Rps27a-ps30   Rps27a-ps4   Rps27a-ps5   Rps27a-ps6   Rps27a-ps7   Rps27a-ps8   Rps27a-ps9   Ubbp4  
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.214103,285,734 - 103,288,011 (-)NCBI
Rnor_6.0 Ensembl5138,628,482 - 138,629,026 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl14113,966,611 - 113,968,268 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.014113,966,163 - 113,968,440 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.014113,632,952 - 113,634,814 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera14102,162,278 - 102,164,555 (-)NCBICelera
Cytogenetic Map14q22NCBI
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:925037   PMID:7488009   PMID:8031840   PMID:8706699   PMID:12477932   PMID:15057822   PMID:15632090   PMID:15883184   PMID:16502470   PMID:16791210   PMID:17634366   PMID:19190083  
PMID:19199708   PMID:19946888   PMID:20458337   PMID:21630459   PMID:22658674   PMID:22681889   PMID:23376485   PMID:23533145  


Genomics

Comparative Map Data
Rps27a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.214103,285,734 - 103,288,011 (-)NCBI
Rnor_6.0 Ensembl5138,628,482 - 138,629,026 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl14113,966,611 - 113,968,268 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.014113,966,163 - 113,968,440 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.014113,632,952 - 113,634,814 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera14102,162,278 - 102,164,555 (-)NCBICelera
Cytogenetic Map14q22NCBI
RPS27A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl255,231,903 - 55,235,853 (+)EnsemblGRCh38hg38GRCh38
GRCh38255,231,903 - 55,235,853 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37255,459,039 - 55,462,989 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36255,313,328 - 55,316,249 (+)NCBINCBI36hg18NCBI36
Build 34255,371,474 - 55,374,396NCBI
Celera255,299,565 - 55,303,515 (+)NCBI
Cytogenetic Map2p16.1NCBI
HuRef255,193,794 - 55,197,744 (+)NCBIHuRef
CHM1_1255,389,096 - 55,393,046 (+)NCBICHM1_1
Rps27a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391129,495,842 - 29,498,040 (-)NCBIGRCm39mm39
GRCm39 Ensembl1129,495,846 - 29,498,109 (-)Ensembl
GRCm381129,545,842 - 29,548,040 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1129,545,846 - 29,548,109 (-)EnsemblGRCm38mm10GRCm38
MGSCv371129,445,842 - 29,448,040 (-)NCBIGRCm37mm9NCBIm37
MGSCv361129,445,842 - 29,448,040 (-)NCBImm8
Celera1131,907,121 - 31,909,319 (-)NCBICelera
Cytogenetic Map11A3.3NCBI
Rps27a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542427,823,575 - 27,825,489 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542427,823,575 - 27,825,489 (-)NCBIChiLan1.0ChiLan1.0
RPS27A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A56,529,856 - 56,533,527 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A56,530,349 - 56,533,527 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A55,389,243 - 55,392,914 (+)NCBIMhudiblu_PPA_v0panPan3
RPS27A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11056,132,924 - 56,135,327 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1056,132,894 - 56,135,327 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1056,089,650 - 56,092,053 (+)NCBI
ROS_Cfam_1.01057,136,975 - 57,139,378 (+)NCBI
UMICH_Zoey_3.11056,838,149 - 56,840,545 (+)NCBI
UNSW_CanFamBas_1.01057,117,379 - 57,119,782 (+)NCBI
UU_Cfam_GSD_1.01057,407,860 - 57,410,263 (+)NCBI
Rps27a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629226,938,453 - 26,940,987 (-)NCBI
SpeTri2.0NW_0049364911,630,172 - 1,632,839 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RPS27A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl385,986,501 - 85,992,911 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1385,989,609 - 85,992,257 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2390,773,810 - 90,776,492 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RPS27A
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11451,664,098 - 51,667,138 (-)NCBI
ChlSab1.1 Ensembl1451,664,101 - 51,667,011 (-)Ensembl
Rps27a
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248336,309,342 - 6,311,762 (-)NCBI

Position Markers
RH128322  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map18p12UniSTS
Cytogenetic Map14q22UniSTS
PMC280674P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map14q22UniSTS
Cytogenetic MapXq21UniSTS
Cytogenetic Map19q11UniSTS
RH131424  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.014113,632,011 - 113,632,228NCBIRnor5.0
RGSC_v3.414110,559,267 - 110,559,483UniSTSRGSC3.4
Celera14102,162,336 - 102,162,552UniSTS
Cytogenetic Map14q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1480049285115493446Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1480049285115493446Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:25
Count of miRNA genes:23
Interacting mature miRNAs:24
Transcripts:ENSRNOT00000005872
Prediction methods: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.


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 8 18 34 18 3 18 32 18 28 1
Medium 4 68 96 64 35 64 16 22 116 52 54 21 16
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001305443 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_031113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07016777 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC058139 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM074661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211529 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217581 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217717 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220688 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221036 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221107 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221156 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221208 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221306 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222453 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222481 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222580 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222775 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222780 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223173 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223327 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223516 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224268 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226119 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228579 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228641 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230060 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X81839 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000005872   ⟹   ENSRNOP00000005872
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl14113,966,611 - 113,968,268 (-)Ensembl
RefSeq Acc Id: NM_001305443   ⟹   NP_001292372
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.214103,285,734 - 103,287,955 (-)NCBI
Rnor_6.014113,966,163 - 113,968,384 (-)NCBI
Celera14102,162,278 - 102,164,499 (-)NCBI
Sequence:
RefSeq Acc Id: NM_031113   ⟹   NP_112375
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.214103,285,734 - 103,288,011 (-)NCBI
Rnor_6.014113,966,163 - 113,968,440 (-)NCBI
Celera14102,162,278 - 102,164,555 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_112375   ⟸   NM_031113
- UniProtKB: P62982 (UniProtKB/Swiss-Prot),   Q6PED0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001292372   ⟸   NM_001305443
- UniProtKB: P62982 (UniProtKB/Swiss-Prot),   Q6PED0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000005872   ⟸   ENSRNOT00000005872
Protein Domains
Ubiquitin-like

Transcriptome

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


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)
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: 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:6489478 AgrOrtholog
Ensembl Genes ENSRNOG00000004426 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00000034246 Ensembl, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000005872 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000048664 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000005872 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000049535 UniProtKB/Swiss-Prot
Gene3D-CATH 2.20.25.660 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Ribosomal_S27a UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ribosomal_zn-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  S27a-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ubiquitin UniProtKB/Swiss-Prot
  Ubiquitin-like_dom UniProtKB/TrEMBL
  Ubiquitin-like_domsf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ubiquitin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ubiquitin_dom UniProtKB/Swiss-Prot
  Ubiquitin_dom UniProtKB/TrEMBL
KEGG Report rno:100912032 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene LOC100912032 ENTREZGENE
Pfam Ribosomal_S27 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ubiquitin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rps27a PhenoGen
PRINTS UBIQUITIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE UBIQUITIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBIQUITIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Ribosomal_S27 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBQ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54236 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57829 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt P62982 ENTREZGENE
  Q6PED0 ENTREZGENE, UniProtKB/TrEMBL
  RS27A_RAT UniProtKB/Swiss-Prot
UniProt Secondary P02248 UniProtKB/Swiss-Prot
  P02249 UniProtKB/Swiss-Prot
  P02250 UniProtKB/Swiss-Prot
  P49664 UniProtKB/Swiss-Prot
  P62989 UniProtKB/Swiss-Prot
  Q29120 UniProtKB/Swiss-Prot
  Q63446 UniProtKB/Swiss-Prot
  Q91887 UniProtKB/Swiss-Prot
  Q91888 UniProtKB/Swiss-Prot
  Q9D2W3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-03-16 Rps27a  ribosomal protein S27a  LOC100912032  ubiquitin-40S ribosomal protein S27a-like  Name and Symbol changed 629549 APPROVED
2012-07-05 LOC100912032  ubiquitin-40S ribosomal protein S27a-like      Symbol and Name status set to provisional 70820 PROVISIONAL