Pccb (propionyl-CoA carboxylase subunit beta) - Rat Genome Database

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Gene: Pccb (propionyl-CoA carboxylase subunit beta) Rattus norvegicus
Analyze
Symbol: Pccb
Name: propionyl-CoA carboxylase subunit beta
RGD ID: 3265
Description: Predicted to enable propionyl-CoA carboxylase activity. Predicted to be involved in cellular amino acid catabolic process and fatty acid catabolic process. Predicted to be located in mitochondrial matrix. Predicted to be part of catalytic complex. Predicted to be active in mitochondrion. Human ortholog(s) of this gene implicated in amino acid metabolic disorder and propionic acidemia. Orthologous to human PCCB (propionyl-CoA carboxylase subunit beta); PARTICIPATES IN 3-hydroxy-3-methylglutaryl-CoA lyase deficiency pathway; 3-hydroxyisobutyric aciduria pathway; 3-methylcrotonyl CoA carboxylase 1 deficiency pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: MGC93516; PCCase subunit beta; propanoyl-CoA:carbon dioxide ligase subunit beta; propionyl CoA carboxylase, beta polypeptide; propionyl Coenzyme A carboxylase, beta polypeptide; propionyl-CoA carboxylase beta chain, mitochondrial; propionyl-CoA carboxylase beta subunit
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
mRatBN7.28101,591,218 - 101,641,213 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8101,590,737 - 101,641,234 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8107,253,215 - 107,303,289 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.08105,452,530 - 105,502,604 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.08103,295,053 - 103,345,127 (-)NCBIRnor_WKY
Rnor_6.08109,368,887 - 109,418,871 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8109,368,624 - 109,418,872 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08108,785,668 - 108,836,131 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48105,946,482 - 105,996,472 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18105,965,673 - 106,015,928 (-)NCBI
Celera8100,982,344 - 101,032,252 (-)NCBICelera
Cytogenetic Map8q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3-chloropropane-1,2-diol  (EXP)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
aristolochic acid  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP,ISO)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
cadmium atom  (ISO)
CGP 52608  (ISO)
chlormequat chloride  (EXP)
cisplatin  (EXP)
clofibrate  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dextran sulfate  (ISO)
dibutyl phthalate  (EXP)
diethylstilbestrol  (ISO)
doxorubicin  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
flutamide  (EXP)
folpet  (ISO)
gentamycin  (EXP)
hydralazine  (ISO)
hydrogen cyanide  (ISO)
isobutanol  (ISO)
isotretinoin  (ISO)
L-ethionine  (EXP)
methyl methanesulfonate  (ISO)
omeprazole  (EXP)
ozone  (ISO)
paclitaxel  (EXP)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
pirinixic acid  (EXP)
poly(propylene imine) macromolecule  (ISO)
potassium cyanide  (ISO)
resveratrol  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (ISO)
temozolomide  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichloroethene  (ISO)
triptonide  (ISO)
tungsten  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
catalytic complex  (IEA,ISO)
mitochondrial matrix  (IEA,ISO,ISS)
mitochondrion  (IBA,TAS)

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
4. Coding sequence of the precursor of the beta subunit of rat propionyl-CoA carboxylase. Kraus JP, etal., Proc Natl Acad Sci U S A 1986 Nov;83(21):8049-53.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. 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.
14. Three independent mutations in the same exon of the PCCB gene: differences between Caucasian and Japanese propionic acidaemia. Tahara T, etal., J Inherit Metab Dis. 1993;16(2):353-60.
Additional References at PubMed
PMID:6765947   PMID:13752080   PMID:14651853   PMID:16023992   PMID:18614015  


Genomics

Comparative Map Data
Pccb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28101,591,218 - 101,641,213 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8101,590,737 - 101,641,234 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8107,253,215 - 107,303,289 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.08105,452,530 - 105,502,604 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.08103,295,053 - 103,345,127 (-)NCBIRnor_WKY
Rnor_6.08109,368,887 - 109,418,871 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8109,368,624 - 109,418,872 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08108,785,668 - 108,836,131 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48105,946,482 - 105,996,472 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18105,965,673 - 106,015,928 (-)NCBI
Celera8100,982,344 - 101,032,252 (-)NCBICelera
Cytogenetic Map8q31NCBI
PCCB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383136,250,340 - 136,330,169 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl3136,250,340 - 136,337,896 (+)EnsemblGRCh38hg38GRCh38
GRCh373135,969,182 - 136,049,011 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363137,451,857 - 137,531,701 (+)NCBINCBI36Build 36hg18NCBI36
Build 343137,451,845 - 137,531,703NCBI
Celera3134,394,227 - 134,474,215 (+)NCBICelera
Cytogenetic Map3q22.3NCBI
HuRef3133,346,299 - 133,425,999 (+)NCBIHuRef
CHM1_13135,932,709 - 136,012,564 (+)NCBICHM1_1
T2T-CHM13v2.03138,996,153 - 139,070,827 (+)NCBIT2T-CHM13v2.0
Pccb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399100,864,085 - 100,916,993 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9100,864,085 - 100,916,951 (-)EnsemblGRCm39 Ensembl
GRCm389100,982,032 - 101,034,940 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9100,982,032 - 101,034,898 (-)EnsemblGRCm38mm10GRCm38
MGSCv379100,882,457 - 100,935,294 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369100,791,390 - 100,844,227 (-)NCBIMGSCv36mm8
Celera9100,520,833 - 100,575,235 (-)NCBICelera
Cytogenetic Map9E4NCBI
Pccb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555012,474,330 - 2,563,837 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555012,474,330 - 2,563,107 (-)NCBIChiLan1.0ChiLan1.0
PCCB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13140,768,319 - 140,845,972 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3140,768,319 - 140,849,270 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03133,304,472 - 133,382,664 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PCCB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12332,689,732 - 32,782,204 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2332,687,839 - 32,836,366 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2332,674,600 - 32,767,066 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02333,218,542 - 33,311,304 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2333,218,274 - 33,331,089 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12332,901,613 - 32,994,062 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02332,968,904 - 33,061,334 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02333,212,801 - 33,305,014 (+)NCBIUU_Cfam_GSD_1.0
Pccb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560272,346,028 - 72,405,814 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365299,106,525 - 9,166,311 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCCB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1377,217,428 - 77,316,568 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11377,217,481 - 77,314,779 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21384,587,489 - 84,684,642 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PCCB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11554,110,014 - 54,198,405 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1554,108,389 - 54,198,329 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604127,159,277 - 27,253,677 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pccb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473012,661,777 - 12,810,991 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473012,662,419 - 12,811,112 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
RH131981  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28101,591,284 - 101,591,487 (+)MAPPERmRatBN7.2
Rnor_6.08109,368,954 - 109,369,156NCBIRnor6.0
Rnor_5.08108,786,214 - 108,786,416UniSTSRnor5.0
RGSC_v3.48105,946,549 - 105,946,751UniSTSRGSC3.4
Celera8100,982,411 - 100,982,613UniSTS
RH 3.4 Map81174.9UniSTS
Cytogenetic Map8q31UniSTS
RH134649  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28101,590,950 - 101,591,159 (+)MAPPERmRatBN7.2
Rnor_6.08109,368,620 - 109,368,828NCBIRnor6.0
Rnor_5.08108,785,880 - 108,786,088UniSTSRnor5.0
RGSC_v3.48105,946,215 - 105,946,423UniSTSRGSC3.4
Celera8100,982,077 - 100,982,285UniSTS
RH 3.4 Map81172.9UniSTS
Cytogenetic Map8q31UniSTS


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
1578755Pur5Proteinuria QTL 53.30.0001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)830848154101699754Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
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

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:31
Count of miRNA genes:29
Interacting mature miRNAs:29
Transcripts:ENSRNOT00000021657
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.


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 57 41 19 41 8 11 74 35 36 11 8
Low 5
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000021657   ⟹   ENSRNOP00000021657
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8101,590,737 - 101,641,234 (-)Ensembl
Rnor_6.0 Ensembl8109,368,624 - 109,418,872 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000096615   ⟹   ENSRNOP00000089837
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8101,590,737 - 101,641,234 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000111922   ⟹   ENSRNOP00000088818
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8101,590,737 - 101,641,234 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113920   ⟹   ENSRNOP00000084320
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8101,590,737 - 101,641,226 (-)Ensembl
RefSeq Acc Id: NM_017030   ⟹   NP_058726
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28101,591,218 - 101,641,213 (-)NCBI
Rnor_6.08109,368,887 - 109,418,871 (-)NCBI
Rnor_5.08108,785,668 - 108,836,131 (-)NCBI
RGSC_v3.48105,946,482 - 105,996,472 (-)RGD
Celera8100,982,344 - 101,032,252 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058726   ⟸   NM_017030
- Peptide Label: precursor
- UniProtKB: Q68FZ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000021657   ⟸   ENSRNOT00000021657
RefSeq Acc Id: ENSRNOP00000088818   ⟸   ENSRNOT00000111922
RefSeq Acc Id: ENSRNOP00000089837   ⟸   ENSRNOT00000096615
RefSeq Acc Id: ENSRNOP00000084320   ⟸   ENSRNOT00000113920
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P07633-F1-model_v2 AlphaFold P07633 1-541 view protein structure

Transcriptome

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

Promoters
RGD ID:13696219
Promoter ID:EPDNEW_R6744
Type:multiple initiation site
Name:Pccb_1
Description:propionyl-CoA carboxylase beta subunit
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_6.08109,418,877 - 109,418,937EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 108787595 108787596 C G snv IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3265 AgrOrtholog
BioCyc Gene G2FUF-29364 BioCyc
BioCyc Pathway PROPIONMET-PWY [propanoyl CoA degradation I] BioCyc
Ensembl Genes ENSRNOG00000015869 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000021657 ENTREZGENE
  ENSRNOP00000021657.3 UniProtKB/TrEMBL
  ENSRNOP00000084320.1 UniProtKB/TrEMBL
  ENSRNOP00000088818.1 UniProtKB/TrEMBL
  ENSRNOP00000089837.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000021657 ENTREZGENE
  ENSRNOT00000021657.4 UniProtKB/TrEMBL
  ENSRNOT00000096615.1 UniProtKB/TrEMBL
  ENSRNOT00000111922.1 UniProtKB/TrEMBL
  ENSRNOT00000113920.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7108495 IMAGE-MGC_LOAD
InterPro AcCoA_carboxyl UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ClpP/crotonase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  COA_CT_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  COA_CT_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24624 UniProtKB/TrEMBL
MGC_CLONE MGC:93516 IMAGE-MGC_LOAD
NCBI Gene 24624 ENTREZGENE
Pfam Carboxyl_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pccb PhenoGen
PROSITE COA_CT_CTER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  COA_CT_NTER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52096 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZYQ5_RAT UniProtKB/TrEMBL
  A0A8I6A8K8_RAT UniProtKB/TrEMBL
  A0A8I6A9J4_RAT UniProtKB/TrEMBL
  P07633 ENTREZGENE, UniProtKB/Swiss-Prot
  Q68FZ8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-05-04 Pccb  propionyl-CoA carboxylase subunit beta  Pccb  propionyl-CoA carboxylase beta subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-11-20 Pccb  propionyl-CoA carboxylase beta subunit  Pccb  propionyl CoA carboxylase, beta polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-08-02 Pccb  propionyl CoA carboxylase, beta polypeptide  Pccb  propionyl coenzyme A carboxylase, beta polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Pccb  Propionyl Coenzyme A carboxylase, beta polypeptide      Symbol and Name status set to approved 70586 APPROVED