Rpusd4 (RNA pseudouridine synthase D4) - Rat Genome Database

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Gene: Rpusd4 (RNA pseudouridine synthase D4) Chinchilla lanigera
Analyze
Symbol: Rpusd4
Name: RNA pseudouridine synthase D4
RGD ID: 8897615
Description: ENCODES a protein that exhibits mitochondrial ribosomal large subunit rRNA binding (ortholog); pseudouridine synthase activity (ortholog); tRNA binding (ortholog); INVOLVED IN mitochondrial tRNA pseudouridine synthesis (ortholog); mRNA pseudouridine synthesis (ortholog); positive regulation of mitochondrial translation (ortholog); ASSOCIATED WITH Chromosome 11, Partial Trisomy 11q (ortholog); Dwarfism (ortholog); genetic disease (ortholog); FOUND IN mitochondrion (ortholog); nucleoplasm (ortholog); ribonucleoprotein granule (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: RNA pseudouridylate synthase domain containing 4; RNA pseudouridylate synthase domain-containing protein 4
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541227,229,492 - 27,239,339 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541227,231,371 - 27,239,366 (-)NCBIChiLan1.0ChiLan1.0
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

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
Rpusd4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541227,229,492 - 27,239,339 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541227,231,371 - 27,239,366 (-)NCBIChiLan1.0ChiLan1.0
RPUSD4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811126,202,096 - 126,211,650 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11126,202,096 - 126,211,692 (-)EnsemblGRCh38hg38GRCh38
GRCh3711126,071,991 - 126,081,545 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611125,577,519 - 125,586,751 (-)NCBINCBI36Build 36hg18NCBI36
Build 3411125,577,518 - 125,586,751NCBI
Celera11123,237,291 - 123,246,895 (-)NCBICelera
Cytogenetic Map11q24.2NCBI
HuRef11122,013,961 - 122,023,565 (-)NCBIHuRef
CHM1_111125,958,497 - 125,968,095 (-)NCBICHM1_1
T2T-CHM13v2.011126,231,624 - 126,241,182 (-)NCBIT2T-CHM13v2.0
Rpusd4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39935,179,177 - 35,187,253 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl935,179,161 - 35,189,027 (+)EnsemblGRCm39 Ensembl
GRCm38935,267,881 - 35,275,957 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl935,267,865 - 35,277,731 (+)EnsemblGRCm38mm10GRCm38
MGSCv37935,075,466 - 35,083,542 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36935,017,552 - 35,025,628 (+)NCBIMGSCv36mm8
Celera932,504,456 - 32,512,514 (+)NCBICelera
Cytogenetic Map9A4NCBI
cM Map920.15NCBI
Rpusd4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8841,875,217 - 41,884,702 (+)NCBIGRCr8
mRatBN7.2833,617,384 - 33,626,873 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl833,617,379 - 33,626,873 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx837,687,547 - 37,697,027 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0835,970,590 - 35,980,072 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0833,833,432 - 33,842,913 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0836,467,706 - 36,477,190 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl836,467,706 - 36,477,189 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0836,485,875 - 36,495,293 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4835,049,195 - 35,058,741 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1835,057,960 - 35,067,504 (+)NCBI
Celera835,036,893 - 35,046,936 (+)NCBICelera
Cytogenetic Map8q21NCBI
RPUSD4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v29126,867,548 - 126,894,866 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan111127,976,408 - 128,002,490 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v011120,997,815 - 121,025,558 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111124,926,908 - 124,936,584 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11124,926,910 - 124,936,621 (-)Ensemblpanpan1.1panPan2
RPUSD4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.158,300,421 - 8,311,193 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl58,299,771 - 8,311,210 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha58,361,626 - 8,372,396 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.058,256,012 - 8,266,783 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl58,256,031 - 8,269,068 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.158,325,591 - 8,336,354 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.058,299,291 - 8,310,070 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.058,333,577 - 8,344,368 (+)NCBIUU_Cfam_GSD_1.0
Rpusd4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947108,416,888 - 108,436,462 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365726,013,582 - 6,026,837 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365726,013,920 - 6,027,023 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RPUSD4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl953,296,538 - 53,309,180 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1953,295,854 - 53,309,192 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2959,186,851 - 59,194,507 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RPUSD4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11117,313,209 - 117,338,728 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1117,330,040 - 117,338,682 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660438,733,820 - 8,816,405 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rpusd4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624812359,184 - 366,872 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624812311,912 - 366,427 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000024344   ⟹   ENSCLAP00000024112
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541227,229,492 - 27,239,339 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000024345   ⟹   ENSCLAP00000024113
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541227,229,492 - 27,239,339 (-)Ensembl
RefSeq Acc Id: XM_005378485   ⟹   XP_005378542
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541227,231,371 - 27,239,366 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005378487   ⟹   XP_005378544
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541227,231,371 - 27,238,956 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005378542 (Get FASTA)   NCBI Sequence Viewer  
  XP_005378544 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000024112.1
  ENSCLAP00000024113
  ENSCLAP00000024113.1
Reference Protein Sequences
RefSeq Acc Id: XP_005378542   ⟸   XM_005378485
- Peptide Label: isoform X1
- UniProtKB: A0A8C2W2A8 (UniProtKB/TrEMBL),   A0A8C2W287 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005378544   ⟸   XM_005378487
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSCLAP00000024112   ⟸   ENSCLAT00000024344
RefSeq Acc Id: ENSCLAP00000024113   ⟸   ENSCLAT00000024345
Protein Domains
Pseudouridine synthase RsuA/RluA-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000016553 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000024344.1 UniProtKB/TrEMBL
  ENSCLAT00000024345 ENTREZGENE
  ENSCLAT00000024345.1 UniProtKB/TrEMBL
Gene3D-CATH Pseudouridine synthase UniProtKB/TrEMBL
InterPro PsdUridine_synth_cat_dom_sf UniProtKB/TrEMBL
  PsdUridine_synth_RluC/D_CS UniProtKB/TrEMBL
  PsdUridine_synth_RsuA/RluA UniProtKB/TrEMBL
NCBI Gene Rpusd4 ENTREZGENE
PANTHER MITOCHONDRIAL RNA PSEUDOURIDINE SYNTHASE UniProtKB/TrEMBL
  PSEUDOURIDYLATE SYNTHASE RPUSD4, MITOCHONDRIAL UniProtKB/TrEMBL
Pfam PseudoU_synth_2 UniProtKB/TrEMBL
PROSITE PSI_RLU UniProtKB/TrEMBL
Superfamily-SCOP SSF55120 UniProtKB/TrEMBL
UniProt A0A8C2W287 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2W2A8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-09-18 Rpusd4  RNA pseudouridine synthase D4    RNA pseudouridylate synthase domain containing 4  Symbol and/or name change 5135510 APPROVED