Rps27a-ps12 (ribosomal protein S27a, pseudogene 12) - Rat Genome Database

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Gene: Rps27a-ps12 (ribosomal protein S27a, pseudogene 12) Rattus norvegicus
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Symbol: Rps27a-ps12
Name: ribosomal protein S27a, pseudogene 12
RGD ID: 1564290
Description: Predicted to be involved in translation. Orthologous to human UBBP4 (ubiquitin B pseudogene 4); INTERACTS WITH acrylamide (ortholog); testosterone (ortholog).
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: INFERRED
Previously known as: Gm8430; LOC498837; predicted pseudogene 8430; RGD1564290; ribosomal protein S27-like 3; Rps27l3; similar to ribosomal protein S27a; Ubbp4; ubiquitin B pseudogene 4
RGD Orthologs
Human
Mouse
Alliance Orthologs
More Info more info ...
Related Functional Gene: Rps27a  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81824,517,016 - 24,517,709 (-)NCBIGRCr8
mRatBN7.21824,242,836 - 24,243,530 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1824,242,880 - 24,243,492 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1824,370,879 - 24,371,572 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_WKY_Bbb_1.01824,465,901 - 24,466,595 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01825,394,160 - 25,394,853 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01825,109,896 - 25,110,559 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41825,059,320 - 25,059,931 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1823,992,337 - 23,993,030 (-)NCBICelera
Cytogenetic Map18p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
acrylamide  (ISO)
testosterone  (ISO)

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.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Rps27a-ps12
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81824,517,016 - 24,517,709 (-)NCBIGRCr8
mRatBN7.21824,242,836 - 24,243,530 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1824,242,880 - 24,243,492 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1824,370,879 - 24,371,572 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_WKY_Bbb_1.01824,465,901 - 24,466,595 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01825,394,160 - 25,394,853 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01825,109,896 - 25,110,559 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41825,059,320 - 25,059,931 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1823,992,337 - 23,993,030 (-)NCBICelera
Cytogenetic Map18p12NCBI
UBBP4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381722,090,750 - 22,205,151 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1722,090,743 - 22,205,156 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl1722,204,093 - 22,205,009 (+)EnsemblGRCh38hg38GRCh38
GRCh371720,771,840 - 21,731,757 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361721,654,826 - 21,655,739 (+)NCBINCBI36Build 36hg18NCBI36
Celera1719,846,820 - 19,848,706 (+)NCBICelera
Cytogenetic Map17p11.2NCBI
HuRef1720,930,295 - 20,932,187 (+)NCBIHuRef
CHM1_11721,792,310 - 21,794,202 (+)NCBICHM1_1
T2T-CHM13v2.01722,756,789 - 22,866,794 (+)NCBIT2T-CHM13v2.0
Gm8797
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3935,815,953 - 5,816,355 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl35,815,866 - 5,816,355 (+)EnsemblGRCm39 Ensembl
GRCm3835,750,893 - 5,751,295 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl35,750,806 - 5,751,295 (+)EnsemblGRCm38mm10GRCm38
MGSCv3735,750,803 - 5,751,296 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3635,733,878 - 5,734,370 (+)NCBIMGSCv36mm8
Celera35,821,129 - 5,821,622 (+)NCBICelera
Cytogenetic Map3A1NCBI
cM Map31.96NCBI

Variants

.
Variants in Rps27a-ps12
2 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2301410Bp317Blood pressure QTL 3170.004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181194427326548295Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)181194429959330563Rat
1331735Rf44Renal function QTL 442.981urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)181823456431359530Rat
61382Bp46Blood pressure QTL 4618.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194179131393320Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182137289383213037Rat
8552968Pigfal19Plasma insulin-like growth factor 1 level QTL 1911.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)18125758124Rat
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135374722Rat
1331781Scl28Serum cholesterol level QTL 283.995blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)181194429924797117Rat
6903359Bp355Blood pressure QTL 3553.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194454459796478Rat
2313082Bss85Bone structure and strength QTL 850.80.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)181495133759951337Rat
1641923Colcr8Colorectal carcinoma resistance QTL 83.10.0014intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)182206624252293055Rat
2312568Glom21Glomerulus QTL 2120.005kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)18518585840503530Rat
1331766Bp236Blood pressure QTL 2363.022arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181194429931359530Rat
1358193Emca2Estrogen-induced mammary cancer QTL 21.6mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)181800759963571040Rat
631264Scl22Serum cholesterol level QTL 226.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)181194179131393320Rat
1331775Bp235Blood pressure QTL 2353.201arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181823456431359530Rat
12904680Bw189Body weight QTL 1890.019body mass (VT:0001259)body weight (CMO:0000012)181194427326548295Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)181927890183218561Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181179151863636873Rat
12904693Am20Aortic mass QTL 200.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)181194427326548295Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181179151883218561Rat
12904695Kidm73Kidney mass QTL 730.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)181194427326548295Rat
2312598Bp340Blood pressure QTL 3400.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18130558703Rat
12904689Cm128Cardiac mass QTL 1280.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)181194427326548295Rat
12904690Cm129Cardiac mass QTL 1290.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)181194427326548295Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18134291613Rat
12904691Cm130Cardiac mass QTL 1300.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)181194427326548295Rat
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125758124Rat
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18420794160377792Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181179151883218561Rat
1331753Bp231Blood pressure QTL 2313.643arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194429952293055Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134291613Rat
61375Bp41Blood pressure QTL 412.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)181194429941122201Rat

Markers in Region
RH128322  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map18p12UniSTS
Cytogenetic Map14q22UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSRNOT00000027780   ⟹   ENSRNOP00000027780
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1824,242,880 - 24,243,492 (-)Ensembl
RefSeq Acc Id: XM_001060136   ⟹   XP_001060136
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1823,992,356 - 23,993,016 (-)NCBI
RefSeq Acc Id: XM_008772051   ⟹   XP_008770273
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01825,394,170 - 25,394,839 (-)NCBI
RefSeq Acc Id: XM_008774107   ⟹   XP_008772329
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1823,992,356 - 23,993,016 (-)NCBI
RefSeq Acc Id: XM_574121   ⟹   XP_574121
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01825,394,170 - 25,394,839 (-)NCBI
Rnor_5.01825,109,896 - 25,110,559 (-)NCBI
RGSC_v3.41825,059,320 - 25,059,931 (-)RGD
Protein Sequences
Ensembl Protein ENSRNOP00000027780.7
RefSeq Acc Id: XP_001060136   ⟸   XM_001060136
- Peptide Label: isoform X1
RefSeq Acc Id: XP_574121   ⟸   XM_574121
- Peptide Label: isoform X1
RefSeq Acc Id: XP_008772329   ⟸   XM_008774107
- Peptide Label: isoform X2
RefSeq Acc Id: XP_008770273   ⟸   XM_008772051
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000027780   ⟸   ENSRNOT00000027780
Protein Domains
Ubiquitin-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LU69-F1-model_v2 AlphaFold F1LU69 1-150 view protein structure

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:1564290 AgrOrtholog
BioCyc Gene G2FUF-8021 BioCyc
Ensembl Genes ENSRNOG00000020492 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027780.8 UniProtKB/TrEMBL
Gene3D-CATH 6.20.50.150 UniProtKB/TrEMBL
InterPro Ribosomal_S27a UniProtKB/TrEMBL
  Ribosomal_zn-bd UniProtKB/TrEMBL
  S27a-like_sf UniProtKB/TrEMBL
  Ubiquitin-like_dom UniProtKB/TrEMBL
  Ubiquitin-like_domsf UniProtKB/TrEMBL
  Ubiquitin_dom UniProtKB/TrEMBL
  Ubiquitin_ubiquitin-like UniProtKB/TrEMBL
NCBI Gene 498837 ENTREZGENE
PANTHER UBIQUITIN UniProtKB/TrEMBL
  UBIQUITIN-60S RIBOSOMAL PROTEIN L40 UniProtKB/TrEMBL
Pfam Ribosomal_S27 UniProtKB/TrEMBL
  ubiquitin UniProtKB/TrEMBL
PhenoGen Rps27a-ps12 PhenoGen
PRINTS UBIQUITIN UniProtKB/TrEMBL
PROSITE UBIQUITIN_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000020492 RatGTEx
SMART Ribosomal_S27 UniProtKB/TrEMBL
  UBQ UniProtKB/TrEMBL
Superfamily-SCOP SSF54236 UniProtKB/TrEMBL
  SSF57829 UniProtKB/TrEMBL
UniProt F1LU69_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-07-18 Rps27a-ps12  ribosomal protein S27a, pseudogene 12  Rps27a-ps34  ribosomal protein S27a, pseudogene 34  Name and Symbol changed 629549 APPROVED
2022-07-18 Rps27a-ps34  ribosomal protein S27a, pseudogene 34  Ubbp4  ubiquitin B pseudogene 4  Name and Symbol changed 629549 APPROVED
2017-01-03 Ubbp4  ubiquitin B pseudogene 4  Rps27a-ps12  ribosomal protein S27a, pseudogene 12  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-05-18 Rps27a-ps12  ribosomal protein S27a, pseudogene 12  Rps27l3  ribosomal protein S27-like 3  Name and Symbol changed 629549 APPROVED
2013-03-05 Rps27l3  ribosomal protein S27-like 3  Gm8430  predicted pseudogene 8430  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-12 Gm8430  predicted pseudogene 8430  RGD1564290  similar to ribosomal protein S27a  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1564290  similar to ribosomal protein S27a   RGD1564290_predicted  similar to ribosomal protein S27a (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564290_predicted  similar to ribosomal protein S27a (predicted)  LOC498837  similar to ribosomal protein S27a  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498837  similar to ribosomal protein S27a      Symbol and Name status set to provisional 70820 PROVISIONAL