Uba5 (ubiquitin-like modifier activating enzyme 5) - Rat Genome Database

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Gene: Uba5 (ubiquitin-like modifier activating enzyme 5) Rattus norvegicus
Analyze
Symbol: Uba5
Name: ubiquitin-like modifier activating enzyme 5
RGD ID: 1311702
Description: Predicted to enable UFM1 activating enzyme activity; protein homodimerization activity; and zinc ion binding activity. Predicted to be involved in several processes, including myeloid cell differentiation; protein K69-linked ufmylation; and reticulophagy. Predicted to be located in endoplasmic reticulum membrane. Predicted to be active in cytosol. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 24 and developmental and epileptic encephalopathy 44. Orthologous to human UBA5 (ubiquitin like modifier activating enzyme 5); INTERACTS WITH (+)-schisandrin B; 1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane; 17beta-estradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC300968; MGC105565; Ube1dc1; ubiquitin-activating enzyme 5; ubiquitin-activating enzyme E1 domain-containing protein 1; ubiquitin-activating enzyme E1-domain containing 1; ubiquitin-like modifier-activating enzyme 5; UFM1-activating enzyme
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28104,665,241 - 104,680,850 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8104,665,046 - 104,680,894 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8110,312,345 - 110,328,010 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.08108,511,538 - 108,527,203 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.08106,354,238 - 106,369,903 (-)NCBIRnor_WKY
Rnor_6.08112,578,607 - 112,594,192 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8112,578,590 - 112,594,261 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08111,967,198 - 111,981,855 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48109,109,592 - 109,124,197 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18109,129,046 - 109,143,652 (-)NCBI
Celera8104,030,471 - 104,045,054 (-)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. UBA5 Mutations Cause a New Form of Autosomal Recessive Cerebellar Ataxia. Duan R, etal., PLoS One. 2016 Feb 12;11(2):e0149039. doi: 10.1371/journal.pone.0149039. eCollection 2016.
2. 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.
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15071506   PMID:15489334   PMID:20018847   PMID:23152784   PMID:25219498   PMID:27545681  


Genomics

Comparative Map Data
Uba5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28104,665,241 - 104,680,850 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8104,665,046 - 104,680,894 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8110,312,345 - 110,328,010 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.08108,511,538 - 108,527,203 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.08106,354,238 - 106,369,903 (-)NCBIRnor_WKY
Rnor_6.08112,578,607 - 112,594,192 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8112,578,590 - 112,594,261 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08111,967,198 - 111,981,855 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48109,109,592 - 109,124,197 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18109,129,046 - 109,143,652 (-)NCBI
Celera8104,030,471 - 104,045,054 (-)NCBICelera
Cytogenetic Map8q32NCBI
UBA5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383132,654,430 - 132,679,794 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl3132,654,446 - 132,679,794 (+)EnsemblGRCh38hg38GRCh38
GRCh373132,373,274 - 132,398,638 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363133,861,836 - 133,879,312 (+)NCBINCBI36Build 36hg18NCBI36
Celera3130,798,783 - 130,822,433 (+)NCBICelera
Cytogenetic Map3q22.1NCBI
HuRef3129,753,022 - 129,776,586 (+)NCBIHuRef
CHM1_13132,336,305 - 132,359,955 (+)NCBICHM1_1
T2T-CHM13v2.03135,398,923 - 135,424,284 (+)NCBIT2T-CHM13v2.0
Uba5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399103,923,786 - 103,940,767 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9103,923,798 - 103,940,333 (-)EnsemblGRCm39 Ensembl
GRCm389104,046,587 - 104,063,176 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9104,046,599 - 104,063,134 (-)EnsemblGRCm38mm10GRCm38
MGSCv379103,948,918 - 103,965,451 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369103,905,860 - 103,921,466 (-)NCBIMGSCv36mm8
Celera9103,599,621 - 103,615,932 (-)NCBICelera
Cytogenetic Map9F1NCBI
Uba5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555015,841,606 - 5,870,953 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555015,841,516 - 5,864,304 (-)NCBIChiLan1.0ChiLan1.0
UBA5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13137,208,916 - 137,227,246 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3137,209,715 - 137,227,147 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03129,732,314 - 129,752,579 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
UBA5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12329,645,755 - 29,658,587 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2329,645,966 - 29,659,019 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2329,620,276 - 29,633,519 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02330,159,284 - 30,172,532 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2330,159,776 - 30,172,962 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12329,855,266 - 29,868,510 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02329,912,394 - 29,925,642 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02330,160,514 - 30,173,360 (+)NCBIUU_Cfam_GSD_1.0
Uba5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560269,236,962 - 69,251,302 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365295,996,707 - 6,014,227 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365295,997,459 - 6,010,776 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UBA5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1373,822,920 - 73,868,423 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11373,831,485 - 73,859,781 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21381,403,623 - 81,539,888 (+)NCBISscrofa10.2Sscrofa10.2susScr3
UBA5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11557,596,490 - 57,613,103 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1557,592,728 - 57,612,928 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604130,584,610 - 30,601,104 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Uba5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247308,792,854 - 8,867,707 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247308,791,691 - 8,819,957 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Uba5
132 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:43
Count of miRNA genes:40
Interacting mature miRNAs:41
Transcripts:ENSRNOT00000015240
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)851351728107062046Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
631217Activ1Activity QTL 115.9voluntary movement trait (VT:0003491)number of photobeam interruptions in an experimental apparatus (CMO:0001517)8102370617108923645Rat

Markers in Region
RH130409  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map81156.5UniSTS
Cytogenetic Map8q32UniSTS


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
Medium 3 35 55 39 19 39 1 4 74 35 41 11 1
Low 8 2 2 2 7 7 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000015240   ⟹   ENSRNOP00000015240
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8104,665,046 - 104,680,894 (-)Ensembl
Rnor_6.0 Ensembl8112,578,590 - 112,594,261 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000105523   ⟹   ENSRNOP00000083523
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8104,665,046 - 104,680,894 (-)Ensembl
RefSeq Acc Id: NM_001009669   ⟹   NP_001009669
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28104,666,093 - 104,680,850 (-)NCBI
Rnor_6.08112,579,455 - 112,594,192 (-)NCBI
Rnor_5.08111,967,198 - 111,981,855 (-)NCBI
RGSC_v3.48109,109,592 - 109,124,197 (-)RGD
Celera8104,030,471 - 104,045,054 (-)RGD
Sequence:
RefSeq Acc Id: XM_017595592   ⟹   XP_017451081
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28104,665,241 - 104,677,872 (-)NCBI
Rnor_6.08112,578,607 - 112,591,258 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001009669 (Get FASTA)   NCBI Sequence Viewer  
  XP_017451081 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH88757 (Get FASTA)   NCBI Sequence Viewer  
  EDL77365 (Get FASTA)   NCBI Sequence Viewer  
  EDL77366 (Get FASTA)   NCBI Sequence Viewer  
  Q5M7A4 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001009669   ⟸   NM_001009669
- UniProtKB: Q5M7A4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017451081   ⟸   XM_017595592
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000015240   ⟸   ENSRNOT00000015240
RefSeq Acc Id: ENSRNOP00000083523   ⟸   ENSRNOT00000105523
Protein Domains
ThiF

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5M7A4-F1-model_v2 AlphaFold Q5M7A4 1-403 view protein structure

Transcriptome

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

Promoters
RGD ID:13696234
Promoter ID:EPDNEW_R6759
Type:initiation region
Name:Uba5_1
Description:ubiquitin-like modifier activating enzyme 5
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_6.08112,594,199 - 112,594,259EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311702 AgrOrtholog
BioCyc Gene G2FUF-29297 BioCyc
BioCyc Pathway PWY-7511 [protein ubiquitination] BioCyc
Ensembl Genes ENSRNOG00000011027 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000015240 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000083523.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015240 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000105523.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7309521 IMAGE-MGC_LOAD
InterPro D-isomer_DH_CS1 UniProtKB/Swiss-Prot
  ThiF/MoeB/HesA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ThiF_NAD_FAD-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ubiquitin-activating_enz UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:300968 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105565 IMAGE-MGC_LOAD
NCBI Gene 300968 ENTREZGENE
PANTHER PTHR10953 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam ThiF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Uba5 PhenoGen
Superfamily-SCOP SSF69572 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6GAV1_RAT UniProtKB/TrEMBL
  Q5M7A4 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-05-02 Uba5  ubiquitin-like modifier activating enzyme 5  Ube1dc1  ubiquitin-activating enzyme E1-domain containing 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Ube1dc1  ubiquitin-activating enzyme E1-domain containing 1  Ube1dc1_predicted  ubiquitin-activating enzyme E1-domain containing 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Ube1dc1_predicted  ubiquitin-activating enzyme E1-domain containing 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED