Ubac1 (UBA domain containing 1) - Rat Genome Database

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Gene: Ubac1 (UBA domain containing 1) Rattus norvegicus
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Symbol: Ubac1
Name: UBA domain containing 1
RGD ID: 1359542
Description: Predicted to be involved in protein ubiquitination. Predicted to be located in Golgi apparatus; cytosol; and plasma membrane. Predicted to be part of ubiquitin ligase complex. Orthologous to human UBAC1 (UBA domain containing 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: E3 ubiquitin-protein ligase subunit KPC2; kip1 ubiquitination-promoting complex protein 2; MGC94349; UBA domain-containing protein 1; Ubadc1; ubiquitin associated domain containing 1; ubiquitin-associated domain-containing protein 1
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
mRatBN7.238,825,444 - 8,848,055 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,825,447 - 8,848,028 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx311,879,742 - 11,902,318 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0320,462,958 - 20,485,534 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0318,718,277 - 18,740,852 (-)NCBIRnor_WKY
Rnor_6.033,453,396 - 3,476,242 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl33,453,401 - 3,476,215 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.038,815,478 - 8,838,317 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.434,178,964 - 4,201,546 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.134,178,964 - 4,201,546 (-)NCBI
Celera33,648,558 - 3,671,079 (-)NCBICelera
Cytogenetic Map3p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Cytoplasmic ubiquitin ligase KPC regulates proteolysis of p27(Kip1) at G1 phase. Kamura T, etal., Nat Cell Biol. 2004 Dec;6(12):1229-35. Epub 2004 Nov 7.
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15489334   PMID:19056867  


Genomics

Comparative Map Data
Ubac1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.238,825,444 - 8,848,055 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,825,447 - 8,848,028 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx311,879,742 - 11,902,318 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0320,462,958 - 20,485,534 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0318,718,277 - 18,740,852 (-)NCBIRnor_WKY
Rnor_6.033,453,396 - 3,476,242 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl33,453,401 - 3,476,215 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.038,815,478 - 8,838,317 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.434,178,964 - 4,201,546 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.134,178,964 - 4,201,546 (-)NCBI
Celera33,648,558 - 3,671,079 (-)NCBICelera
Cytogenetic Map3p13NCBI
UBAC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389135,932,969 - 135,961,373 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl9135,932,969 - 135,961,373 (-)EnsemblGRCh38hg38GRCh38
GRCh379138,824,815 - 138,853,219 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369137,964,636 - 137,993,047 (-)NCBINCBI36Build 36hg18NCBI36
Build 349136,050,760 - 136,079,171NCBI
Celera9109,342,762 - 109,371,166 (-)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9108,286,791 - 108,315,192 (-)NCBIHuRef
CHM1_19138,973,280 - 139,001,687 (-)NCBICHM1_1
T2T-CHM13v2.09148,160,391 - 148,188,795 (-)NCBIT2T-CHM13v2.0
Ubac1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,886,970 - 25,911,793 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,888,555 - 25,911,759 (-)EnsemblGRCm39 Ensembl
GRCm38225,996,958 - 26,021,781 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,998,543 - 26,021,747 (-)EnsemblGRCm38mm10GRCm38
MGSCv37225,852,478 - 25,877,280 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36225,820,556 - 25,843,720 (-)NCBIMGSCv36mm8
Celera225,719,171 - 25,743,918 (-)NCBICelera
Cytogenetic Map2A3NCBI
Ubac1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555134,621,242 - 4,640,318 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555134,620,978 - 4,640,318 (+)NCBIChiLan1.0ChiLan1.0
UBAC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19135,988,020 - 136,016,046 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9135,988,020 - 136,016,046 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v09107,004,643 - 107,033,286 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
UBAC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1949,423,924 - 49,444,589 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl949,423,408 - 49,444,585 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha948,676,570 - 48,697,205 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0950,303,023 - 50,323,918 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl950,302,990 - 50,323,914 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1949,083,472 - 49,104,038 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0949,377,562 - 49,398,216 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0949,425,431 - 49,446,308 (+)NCBIUU_Cfam_GSD_1.0
Ubac1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947201,615,940 - 201,632,987 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366691,741,751 - 1,759,117 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049366691,742,065 - 1,759,119 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UBAC1
(Sus scrofa - pig)
No map positions available.
UBAC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1122,237,860 - 2,266,011 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl122,238,013 - 2,266,498 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660582,941,156 - 2,971,776 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ubac1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247601,278,286 - 1,294,482 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247601,278,395 - 1,294,403 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ubac1
35 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:69
Count of miRNA genes:67
Interacting mature miRNAs:68
Transcripts:ENSRNOT00000024352
Prediction methods: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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3127494778Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3131158234Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3133230976Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3133278763Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3133278763Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3136847613Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3138710544Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3653764510778823Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3653764510778823Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3822719433703538Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3865816227494778Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3865816227494778Rat

Markers in Region
RH128711  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2993,842,633 - 93,842,828 (+)MAPPERmRatBN7.2
mRatBN7.238,825,516 - 8,825,711 (+)MAPPERmRatBN7.2
Rnor_6.033,453,471 - 3,453,665NCBIRnor6.0
Rnor_6.09100,448,954 - 100,449,148NCBIRnor6.0
Rnor_5.09100,105,309 - 100,105,503UniSTSRnor5.0
Rnor_5.038,815,553 - 8,815,747UniSTSRnor5.0
RGSC_v3.434,179,035 - 4,179,229UniSTSRGSC3.4
RGSC_v3.4992,580,536 - 92,580,730UniSTSRGSC3.4
Celera991,377,588 - 91,377,782UniSTS
Celera33,648,629 - 3,648,823UniSTS
Cytogenetic Map9q36UniSTS
Cytogenetic Map3p13UniSTS
RH133491  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.238,832,072 - 8,832,291 (+)MAPPERmRatBN7.2
Rnor_6.033,460,267 - 3,460,485NCBIRnor6.0
Rnor_5.038,822,349 - 8,822,567UniSTSRnor5.0
RGSC_v3.434,185,592 - 4,185,810UniSTSRGSC3.4
Celera33,655,182 - 3,655,400UniSTS
Cytogenetic Map3p13UniSTS


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 43 40 25 19 25 8 11 74 35 40 11 8
Low 17 16 16 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024352   ⟹   ENSRNOP00000024352
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl38,825,447 - 8,848,028 (-)Ensembl
Rnor_6.0 Ensembl33,453,401 - 3,476,215 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101668   ⟹   ENSRNOP00000090326
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl38,830,678 - 8,848,028 (-)Ensembl
RefSeq Acc Id: NM_001007742   ⟹   NP_001007743
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.238,825,446 - 8,848,028 (-)NCBI
Rnor_6.033,453,400 - 3,476,215 (-)NCBI
Rnor_5.038,815,478 - 8,838,317 (-)NCBI
RGSC_v3.434,178,964 - 4,201,546 (-)RGD
Celera33,648,558 - 3,671,079 (-)RGD
Sequence:
RefSeq Acc Id: XM_006233689   ⟹   XP_006233751
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.238,825,444 - 8,848,055 (-)NCBI
Rnor_6.033,453,396 - 3,476,242 (-)NCBI
Rnor_5.038,815,478 - 8,838,317 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039105357   ⟹   XP_038961285
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.238,825,444 - 8,848,055 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001007743   ⟸   NM_001007742
- UniProtKB: Q5XIR9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006233751   ⟸   XM_006233689
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000024352   ⟸   ENSRNOT00000024352
RefSeq Acc Id: XP_038961285   ⟸   XM_039105357
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000090326   ⟸   ENSRNOT00000101668
Protein Domains
STI1   UBA   Ubiquitin-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XIR9-F1-model_v2 AlphaFold Q5XIR9 1-409 view protein structure

Transcriptome

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

Promoters
RGD ID:13691895
Promoter ID:EPDNEW_R2420
Type:multiple initiation site
Name:Ubac1_1
Description:UBA domain containing 1
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_6.033,476,255 - 3,476,315EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359542 AgrOrtholog
BioCyc Gene G2FUF-50402 BioCyc
Ensembl Genes ENSRNOG00000017983 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000024352 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000090326 ENTREZGENE
  ENSRNOP00000090326.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024352 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000101668 ENTREZGENE
  ENSRNOT00000101668.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7133164 IMAGE-MGC_LOAD
InterPro STI1_HS-bd UniProtKB/Swiss-Prot
  UBA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBA-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBA1_UBAC1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBA2_UBAC1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ubiquitin-like_domsf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:362087 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94349 IMAGE-MGC_LOAD
NCBI Gene 362087 ENTREZGENE
Pfam UBA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ubac1 PhenoGen
PROSITE UBA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART STI1 UniProtKB/Swiss-Prot
  UBA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46934 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF54236 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6GI40_RAT UniProtKB/TrEMBL
  Q5XIR9 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-23 Ubac1  UBA domain containing 1  Ubac1  ubiquitin associated domain containing 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Ubac1  ubiquitin associated domain containing 1  Ubadc1  ubiquitin associated domain containing 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED