PPCS (phosphopantothenoylcysteine synthetase) - Rat Genome Database

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Gene: PPCS (phosphopantothenoylcysteine synthetase) Canis lupus familiaris
Analyze
Symbol: PPCS
Name: phosphopantothenoylcysteine synthetase
RGD ID: 12230509
Description: ENCODES a protein that exhibits catalytic activity (inferred); identical protein binding (inferred); phosphopantothenate--cysteine ligase activity (inferred); INVOLVED IN acetyl-CoA biosynthetic process (inferred); coenzyme A biosynthetic process (inferred); heart process (inferred); PARTICIPATES IN pantothenic acid metabolic pathway; ASSOCIATED WITH Charcot-Marie-Tooth disease dominant intermediate C (ortholog); dilated cardiomyopathy 2C (ortholog); genetic disease (ortholog); FOUND IN cytoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: phosphopantothenate--cysteine ligase
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.115813,435 - 817,732 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl15813,870 - 816,825 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha151,068,253 - 1,071,661 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.015895,016 - 898,424 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl15895,030 - 898,423 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.115804,254 - 807,662 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.015865,779 - 869,187 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.015880,894 - 884,302 (-)NCBIUU_Cfam_GSD_1.0
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
cytoplasm  (IEA)
nucleus  (IEA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
PPCS
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.115813,435 - 817,732 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl15813,870 - 816,825 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha151,068,253 - 1,071,661 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.015895,016 - 898,424 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl15895,030 - 898,423 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.115804,254 - 807,662 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.015865,779 - 869,187 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.015880,894 - 884,302 (-)NCBIUU_Cfam_GSD_1.0
PPCS
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38142,456,341 - 42,473,417 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl142,456,117 - 42,473,385 (+)EnsemblGRCh38hg38GRCh38
GRCh37142,922,012 - 42,939,088 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36142,694,760 - 42,698,673 (+)NCBINCBI36Build 36hg18NCBI36
Celera141,204,112 - 41,208,024 (+)NCBICelera
Cytogenetic Map1p34.2NCBI
HuRef141,042,280 - 41,046,192 (+)NCBIHuRef
CHM1_1143,039,012 - 43,042,924 (+)NCBICHM1_1
T2T-CHM13v2.0142,326,703 - 42,343,779 (+)NCBIT2T-CHM13v2.0
Ppcs
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394119,275,724 - 119,279,673 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4119,275,727 - 119,279,617 (-)EnsemblGRCm39 Ensembl
GRCm384119,418,527 - 119,422,440 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4119,418,530 - 119,422,420 (-)EnsemblGRCm38mm10GRCm38
MGSCv374119,091,138 - 119,095,025 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364118,916,465 - 118,920,352 (-)NCBIMGSCv36mm8
Celera4118,149,698 - 118,153,626 (-)NCBICelera
Cytogenetic Map4D2.1NCBI
cM Map455.38NCBI
Ppcs
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85138,308,394 - 138,312,047 (-)NCBIGRCr8
mRatBN7.25133,023,077 - 133,026,899 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5133,023,121 - 133,026,933 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5135,751,606 - 135,755,020 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05137,508,062 - 137,511,476 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05137,528,672 - 137,532,086 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05138,466,298 - 138,470,108 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5138,466,293 - 138,470,096 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05142,276,595 - 142,279,846 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45140,008,434 - 140,012,295 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15140,013,626 - 140,017,910 (-)NCBI
Celera5131,547,070 - 131,550,484 (-)NCBICelera
Cytogenetic Map5q36NCBI
Ppcs
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555372,080,865 - 2,085,003 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555372,080,865 - 2,084,199 (+)NCBIChiLan1.0ChiLan1.0
PPCS
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21184,338,463 - 184,355,237 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11183,480,108 - 183,497,012 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0141,756,403 - 41,773,430 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1143,136,337 - 43,153,583 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl143,136,720 - 43,140,620 (+)Ensemblpanpan1.1panPan2
Ppcs
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505858,042,297 - 58,046,179 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647423,867,347 - 23,871,223 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647423,867,117 - 23,870,832 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PPCS
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6168,870,869 - 168,876,779 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16168,833,945 - 168,876,831 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26156,392,581 - 156,397,630 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PPCS
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl2090,467,656 - 90,473,704 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603326,435,491 - 26,452,563 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ppcs
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248921,791,255 - 1,795,250 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248921,791,254 - 1,794,866 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PPCS
18 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 4 5 15 6 6 11 10 6
Low 1 7 6 6 6 1 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_014119727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_014119728 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022427724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038495326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038495327 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038495328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038557671 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038557672 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038557673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038621563 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038621564 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038621565 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038687333 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038687334 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038687335 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_532539 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000004026   ⟹   ENSCAFP00000003720
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl15813,870 - 816,825 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845030127   ⟹   ENSCAFP00845023631
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl15895,030 - 898,423 (-)Ensembl
RefSeq Acc Id: XM_014119727   ⟹   XP_013975202
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.115813,435 - 816,575 (-)NCBI
Dog10K_Boxer_Tasha151,068,253 - 1,071,401 (-)NCBI
Sequence:
RefSeq Acc Id: XM_014119728   ⟹   XP_013975203
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.115813,435 - 816,024 (-)NCBI
Dog10K_Boxer_Tasha151,068,253 - 1,070,833 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038495326   ⟹   XP_038351254
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.115804,254 - 807,662 (-)NCBI
RefSeq Acc Id: XM_038495327   ⟹   XP_038351255
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.115804,254 - 807,402 (-)NCBI
RefSeq Acc Id: XM_038495328   ⟹   XP_038351256
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.115804,254 - 806,834 (-)NCBI
RefSeq Acc Id: XM_038557671   ⟹   XP_038413599
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.015880,894 - 884,302 (-)NCBI
RefSeq Acc Id: XM_038557672   ⟹   XP_038413600
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.015880,894 - 884,042 (-)NCBI
RefSeq Acc Id: XM_038557673   ⟹   XP_038413601
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.015880,894 - 883,474 (-)NCBI
RefSeq Acc Id: XM_038621563   ⟹   XP_038477491
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.015865,779 - 869,187 (-)NCBI
RefSeq Acc Id: XM_038621564   ⟹   XP_038477492
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.015865,779 - 868,927 (-)NCBI
RefSeq Acc Id: XM_038621565   ⟹   XP_038477493
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.015865,779 - 868,359 (-)NCBI
RefSeq Acc Id: XM_038687333   ⟹   XP_038543261
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.015895,016 - 898,424 (-)NCBI
RefSeq Acc Id: XM_038687334   ⟹   XP_038543262
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.015895,016 - 898,164 (-)NCBI
RefSeq Acc Id: XM_038687335   ⟹   XP_038543263
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.015895,016 - 897,596 (-)NCBI
RefSeq Acc Id: XM_532539   ⟹   XP_532539
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.115813,435 - 816,856 (-)NCBI
Dog10K_Boxer_Tasha151,068,253 - 1,071,661 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_532539   ⟸   XM_532539
- Peptide Label: isoform X1
- UniProtKB: A0A8C0QU87 (UniProtKB/TrEMBL),   A0A8C0S6E6 (UniProtKB/TrEMBL),   A0A8I3P9M0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013975202   ⟸   XM_014119727
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_013975203   ⟸   XM_014119728
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSCAFP00000003720   ⟸   ENSCAFT00000004026
RefSeq Acc Id: XP_038351254   ⟸   XM_038495326
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038351255   ⟸   XM_038495327
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038351256   ⟸   XM_038495328
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038477491   ⟸   XM_038621563
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038477492   ⟸   XM_038621564
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038477493   ⟸   XM_038621565
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038543261   ⟸   XM_038687333
- Peptide Label: isoform X1
- UniProtKB: A0A8C0QU87 (UniProtKB/TrEMBL),   A0A8C0S6E6 (UniProtKB/TrEMBL),   A0A8I3P9M0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038543262   ⟸   XM_038687334
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038543263   ⟸   XM_038687335
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038413599   ⟸   XM_038557671
- Peptide Label: isoform X1
- UniProtKB: A0A8C0QU87 (UniProtKB/TrEMBL),   A0A8C0S6E6 (UniProtKB/TrEMBL),   A0A8I3P9M0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038413600   ⟸   XM_038557672
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038413601   ⟸   XM_038557673
- Peptide Label: isoform X3
RefSeq Acc Id: ENSCAFP00845023631   ⟸   ENSCAFT00845030127
Protein Domains
DNA/pantothenate metabolism flavoprotein C-terminal

Promoters
RGD ID:13685838
Promoter ID:EPDNEW_C3905
Type:multiple initiation site
Name:PPCS_1
Description:phosphopantothenoylcysteine synthetase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.115816,834 - 816,894EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000002553 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030023435 UniProtKB/TrEMBL
  ENSCAFG00040010188 UniProtKB/TrEMBL
  ENSCAFG00845016998 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000004026.5 UniProtKB/TrEMBL
  ENSCAFT00030043146.1 UniProtKB/TrEMBL
  ENSCAFT00040018926.1 UniProtKB/TrEMBL
  ENSCAFT00845030127 ENTREZGENE
  ENSCAFT00845030127.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.10300 UniProtKB/TrEMBL
InterPro CoaB-like_sf UniProtKB/TrEMBL
  DNA/pantothenate-metab_flavo_C UniProtKB/TrEMBL
NCBI Gene PPCS ENTREZGENE
PANTHER CORNICHON-RELATED UniProtKB/TrEMBL
  PHOSPHOPANTOTHENATE--CYSTEINE LIGASE UniProtKB/TrEMBL
Pfam DFP UniProtKB/TrEMBL
Superfamily-SCOP SSF102645 UniProtKB/TrEMBL
UniProt A0A8C0QU87 ENTREZGENE
  A0A8C0S6E6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3P9M0 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:44841 ENTREZGENE