Rps29 (ribosomal protein S29) - Rat Genome Database
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Gene: Rps29 (ribosomal protein S29) Rattus norvegicus
Analyze
Symbol: Rps29
Name: ribosomal protein S29
RGD ID: 3596
Description: Predicted to have zinc ion binding activity. Involved in positive regulation of apoptotic process. Localizes to cytosolic small ribosomal subunit. Human ortholog(s) of this gene implicated in Diamond-Blackfan anemia 13. Orthologous to human RPS29 (ribosomal protein S29); PARTICIPATES IN ribosome biogenesis pathway; translation pathway; INTERACTS WITH ammonium chloride; bisphenol A; clofibric acid.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 40S ribosomal protein S29
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2687,635,229 - 87,636,605 (-)NCBI
Rnor_6.0 Ensembl776,980,040 - 76,980,210 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl3147,490,496 - 147,490,666 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl691,455,333 - 91,456,696 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0691,455,333 - 91,456,709 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06100,914,106 - 100,915,482 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4691,115,709 - 91,117,085 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1691,119,164 - 91,120,541 (-)NCBI
Celera686,134,478 - 86,135,854 (-)NCBICelera
Cytogenetic Map6q24NCBI
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:8781548   PMID:15489334   PMID:15883184   PMID:20458337   PMID:21423176   PMID:24930395   PMID:25957688   PMID:31505169  


Genomics

Comparative Map Data
Rps29
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2687,635,229 - 87,636,605 (-)NCBI
Rnor_6.0 Ensembl776,980,040 - 76,980,210 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl3147,490,496 - 147,490,666 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl691,455,333 - 91,456,696 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0691,455,333 - 91,456,709 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06100,914,106 - 100,915,482 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4691,115,709 - 91,117,085 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1691,119,164 - 91,120,541 (-)NCBI
Celera686,134,478 - 86,135,854 (-)NCBICelera
Cytogenetic Map6q24NCBI
RPS29
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1449,570,984 - 49,599,164 (-)EnsemblGRCh38hg38GRCh38
GRCh381449,570,988 - 49,598,710 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371450,037,706 - 50,065,428 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361449,113,789 - 49,122,844 (-)NCBINCBI36hg18NCBI36
Build 341449,120,052 - 49,122,844NCBI
Celera1429,903,866 - 29,912,921 (-)NCBI
Cytogenetic Map14q21.3NCBI
HuRef1430,160,698 - 30,170,443 (-)NCBIHuRef
CHM1_11449,982,406 - 49,992,150 (-)NCBICHM1_1
Rps29
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391269,204,496 - 69,205,960 (-)NCBIGRCm39mm39
GRCm39 Ensembl1269,204,496 - 69,205,960 (-)Ensembl
GRCm381269,157,722 - 69,159,186 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1269,157,722 - 69,159,186 (-)EnsemblGRCm38mm10GRCm38
MGSCv371270,258,709 - 70,260,173 (-)NCBIGRCm37mm9NCBIm37
MGSCv361270,076,330 - 70,077,675 (-)NCBImm8
Celera1270,249,756 - 70,251,220 (-)NCBICelera
Cytogenetic Map12C2NCBI
Rps29
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540913,055,341 - 13,056,437 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540913,056,022 - 13,057,530 (+)NCBIChiLan1.0ChiLan1.0
RPS29
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11448,459,215 - 48,474,644 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01430,155,559 - 30,164,677 (-)NCBIMhudiblu_PPA_v0panPan3
RPS29
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1826,221,546 - 26,223,580 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Rps29
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936583426,476 - 428,008 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RPS29
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1179,454,561 - 179,461,631 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11179,454,923 - 179,456,847 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21199,694,881 - 199,696,780 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RPS29
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12426,621,394 - 26,631,509 (-)NCBI
Rps29
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473119,107,593 - 19,109,651 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)62537030111715717Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)67009971115379601Rat
634330Pia16Pristane induced arthritis QTL 163.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)648432758108268790Rat
4889848Pur25Proteinuria QTL 25140.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)65980306594001333Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)660606431108154445Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)660606431108154445Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)662263348107263348Rat
12801471Schws9Schwannoma susceptibility QTL 9nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)666129520111129520Rat
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
1641904Alcrsp4Alcohol response QTL 4response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)671206251116206251Rat
1300075Glom7Glomerulus QTL 75.60.0000002kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)675449871120449871Rat
1331789Rf37Renal function QTL 373.224kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)675623277120276465Rat
70196BpQTLcluster7Blood pressure QTL cluster 76.82arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)675623277120623277Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)675623277136143011Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)675623277136426962Rat
1581550Pur8Proteinuria QTL 8total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)675623393136142742Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)675623393136142742Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)676902247114203334Rat
2293837Kiddil1Kidney dilation QTL 13.7kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)684763275108464097Rat
2293842Kiddil3Kidney dilation QTL 34.3kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)684763275108464097Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)686422697115379601Rat
1576302Schws4Schwannoma susceptibility QTL 40.0078nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)687418448111129520Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)688507712133507712Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)688996335139410483Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)689631358134631358Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)689631358134631358Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:82
Count of miRNA genes:70
Interacting mature miRNAs:73
Transcripts:ENSRNOT00000005577
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 3 33 24 24 3 24 62 25 28 3
Medium 2 43 56 40 19 40 8 13 54 26 38 10 8
Low 5 15 21 18 12 18 6 40 18 24 8
Below cutoff 16 34 22 11 22 3 3 32 17 14 4 3

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_012876 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC058150 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473947 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209501 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210507 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211411 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211740 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216880 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217140 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217213 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217476 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218037 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218769 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221030 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221251 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221298 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221457 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221640 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221707 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222143 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222293 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222566 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222711 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223222 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223289 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223378 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223402 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223735 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223885 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223975 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224325 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224465 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224476 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224629 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224820 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228434 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228730 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X59051 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000005577   ⟹   ENSRNOP00000005577
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl691,455,333 - 91,456,696 (-)Ensembl
RefSeq Acc Id: NM_012876   ⟹   NP_037008
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2687,635,229 - 87,636,605 (-)NCBI
Rnor_6.0691,455,333 - 91,456,709 (-)NCBI
Rnor_5.06100,914,106 - 100,915,482 (-)NCBI
RGSC_v3.4691,115,709 - 91,117,085 (-)RGD
Celera686,134,478 - 86,135,854 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_037008 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH58150 (Get FASTA)   NCBI Sequence Viewer  
  CAA41778 (Get FASTA)   NCBI Sequence Viewer  
  EDM03498 (Get FASTA)   NCBI Sequence Viewer  
  P62275 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_037008   ⟸   NM_012876
- UniProtKB: P62275 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000005577   ⟸   ENSRNOT00000005577

Transcriptome

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

Promoters
RGD ID:13694630
Promoter ID:EPDNEW_R5154
Type:initiation region
Name:LOC108352650_1
Description:40S ribosomal protein S29
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_6.0691,456,731 - 91,456,791EPDNEW

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)
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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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
SBH/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: SBH/Ygl sequenced by MCW
SBH/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
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:3596 AgrOrtholog
Ensembl Genes ENSRNOG00000004196 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00000028939 UniProtKB/Swiss-Prot
  ENSRNOG00000029443 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00000032542 Ensembl, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000005577 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000040703 UniProtKB/Swiss-Prot
  ENSRNOP00000043270 UniProtKB/Swiss-Prot
  ENSRNOP00000044909 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000005577 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000041384 UniProtKB/Swiss-Prot
  ENSRNOT00000046690 UniProtKB/Swiss-Prot
  ENSRNOT00000050726 UniProtKB/Swiss-Prot
Gene3D-CATH 4.10.830.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:6922365 IMAGE-MGC_LOAD
InterPro 40S_S29/30S_S14z UniProtKB/Swiss-Prot
  Ribosomal_S14 UniProtKB/Swiss-Prot
  Ribosomal_S14/S29 UniProtKB/Swiss-Prot
  Ribosomal_S14_CS UniProtKB/Swiss-Prot
KEGG Report rno:108350501 UniProtKB/Swiss-Prot
  rno:108351482 UniProtKB/Swiss-Prot
  rno:108352650 UniProtKB/Swiss-Prot
  rno:25348 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72902 IMAGE-MGC_LOAD
NCBI Gene 25348 ENTREZGENE
PANTHER PTHR12010 UniProtKB/Swiss-Prot
Pfam Ribosomal_S14 UniProtKB/Swiss-Prot
PhenoGen Rps29 PhenoGen
PROSITE RIBOSOMAL_S14 UniProtKB/Swiss-Prot
TIGR TC216887
UniProt P62275 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary P30054 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Rps29  Ribosomal protein S29      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_protein 55 amino acids and a molecular weight of 6,541 633964