GPCPD1 (glycerophosphocholine phosphodiesterase 1) - Rat Genome Database

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Gene: GPCPD1 (glycerophosphocholine phosphodiesterase 1) Sus scrofa
Analyze
Symbol: GPCPD1
Name: glycerophosphocholine phosphodiesterase 1
RGD ID: 14067152
Description: ENCODES a protein that exhibits carbohydrate binding (inferred); glycerophosphocholine phosphodiesterase activity (inferred); phosphoric diester hydrolase activity (inferred); INVOLVED IN skeletal muscle tissue development (ortholog); ASSOCIATED WITH genetic disease (ortholog); Huntington's disease-like 1 (ortholog); Neoplasm Metastasis (ortholog); FOUND IN cytoplasm (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: glycerophosphocholine phosphodiesterase GDE1 homolog; glycerophosphocholine phosphodiesterase GPCPD1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1714,420,658 - 14,476,212 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11714,420,656 - 14,476,223 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21715,458,697 - 15,510,302 (-)NCBISscrofa10.2Sscrofa10.2susScr3
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
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:14681463   PMID:17145712   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
GPCPD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1714,420,658 - 14,476,212 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11714,420,656 - 14,476,223 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21715,458,697 - 15,510,302 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GPCPD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38205,544,439 - 5,611,006 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl205,544,439 - 5,611,006 (-)EnsemblGRCh38hg38GRCh38
GRCh37205,525,085 - 5,591,652 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36205,473,080 - 5,539,672 (-)NCBINCBI36Build 36hg18NCBI36
Celera205,595,915 - 5,663,197 (-)NCBICelera
Cytogenetic Map20p12.3NCBI
HuRef205,480,738 - 5,547,293 (-)NCBIHuRef
CHM1_1205,525,789 - 5,592,376 (-)NCBICHM1_1
T2T-CHM13v2.0205,585,120 - 5,651,341 (-)NCBIT2T-CHM13v2.0
Gpcpd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392132,371,002 - 132,420,173 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2132,371,002 - 132,429,649 (-)EnsemblGRCm39 Ensembl
GRCm382132,529,082 - 132,578,248 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2132,529,082 - 132,587,729 (-)EnsemblGRCm38mm10GRCm38
MGSCv372132,354,819 - 132,403,984 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362132,220,839 - 132,269,619 (-)NCBIMGSCv36mm8
Celera2133,755,816 - 133,804,873 (-)NCBICelera
Cytogenetic Map2F2NCBI
cM Map264.57NCBI
Gpcpd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83140,240,574 - 140,285,469 (-)NCBIGRCr8
mRatBN7.23119,787,681 - 119,832,550 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3119,787,682 - 119,832,517 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3123,684,043 - 123,728,434 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03132,285,068 - 132,329,435 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03129,940,164 - 129,984,559 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03125,169,131 - 125,213,598 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3125,169,135 - 125,213,607 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03131,661,587 - 131,706,004 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43120,301,433 - 120,347,942 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13120,207,009 - 120,253,515 (-)NCBI
Celera3118,577,563 - 118,640,064 (-)NCBICelera
Cytogenetic Map3q36NCBI
Gpcpd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541516,060,931 - 16,118,059 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541516,062,068 - 16,118,029 (-)NCBIChiLan1.0ChiLan1.0
GPCPD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2216,474,795 - 6,541,510 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1206,473,823 - 6,538,335 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0205,547,190 - 5,613,849 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1205,336,003 - 5,397,458 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl205,336,003 - 5,397,448 (-)Ensemblpanpan1.1panPan2
GPCPD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12416,153,622 - 16,203,155 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2416,148,035 - 16,220,757 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2415,970,494 - 16,025,121 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02416,551,569 - 16,606,256 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2416,539,682 - 16,606,242 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12416,157,889 - 16,212,499 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02416,266,343 - 16,320,996 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02416,597,821 - 16,652,719 (+)NCBIUU_Cfam_GSD_1.0
Gpcpd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640164,970,221 - 165,026,770 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648513,400,995 - 13,458,146 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648513,401,598 - 13,458,125 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GPCPD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1232,522,953 - 32,585,204 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl232,523,236 - 32,584,184 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607111,949,561 - 12,013,632 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gpcpd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247416,472,558 - 6,528,865 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247416,472,558 - 6,529,698 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in GPCPD1
1760 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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 10 3 3 5 2 23 2 3
Low 1 2 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000007712   ⟹   ENSSSCP00000007505
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1714,462,824 - 14,473,699 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000037806   ⟹   ENSSSCP00000052123
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1714,420,658 - 14,466,941 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000093150   ⟹   ENSSSCP00000079012
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1714,430,695 - 14,466,941 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000099908   ⟹   ENSSSCP00000081005
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1714,428,898 - 14,476,122 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000101021   ⟹   ENSSSCP00000079647
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1714,420,658 - 14,466,941 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000101685   ⟹   ENSSSCP00000076388
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1714,457,024 - 14,476,212 (-)Ensembl
RefSeq Acc Id: XM_021078049   ⟹   XP_020933708
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11714,420,656 - 14,476,223 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021078050   ⟹   XP_020933709
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11714,420,674 - 14,476,207 (-)NCBI
Sequence:
RefSeq Acc Id: XR_002340071
Type: NON-CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11714,420,656 - 14,476,208 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020933708   ⟸   XM_021078049
- UniProtKB: A0A4X1UH65 (UniProtKB/TrEMBL),   A0A480JNR5 (UniProtKB/TrEMBL),   A0A287B7N9 (UniProtKB/TrEMBL),   A0A8D1B6I4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020933709   ⟸   XM_021078050
- UniProtKB: A0A4X1UH65 (UniProtKB/TrEMBL),   A0A480JNR5 (UniProtKB/TrEMBL),   A0A287B7N9 (UniProtKB/TrEMBL),   A0A8D1B6I4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000007505   ⟸   ENSSSCT00000007712
RefSeq Acc Id: ENSSSCP00000052123   ⟸   ENSSSCT00000037806
RefSeq Acc Id: ENSSSCP00000081005   ⟸   ENSSSCT00000099908
RefSeq Acc Id: ENSSSCP00000076388   ⟸   ENSSSCT00000101685
RefSeq Acc Id: ENSSSCP00000079012   ⟸   ENSSSCT00000093150
RefSeq Acc Id: ENSSSCP00000079647   ⟸   ENSSSCT00000101021
Protein Domains
CBM20   GP-PDE


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000007043 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005029282 UniProtKB/TrEMBL
  ENSSSCG00015000002 UniProtKB/TrEMBL
  ENSSSCG00025062757 UniProtKB/TrEMBL
  ENSSSCG00030040143 UniProtKB/TrEMBL
  ENSSSCG00035070756 UniProtKB/TrEMBL
  ENSSSCG00040074533 UniProtKB/TrEMBL
  ENSSSCG00045022604 UniProtKB/TrEMBL
  ENSSSCG00050053380 UniProtKB/TrEMBL
  ENSSSCG00055028151 UniProtKB/TrEMBL
  ENSSSCG00060060214 UniProtKB/TrEMBL
  ENSSSCG00065036342 UniProtKB/TrEMBL
  ENSSSCG00070016921 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000037806 ENTREZGENE
  ENSSSCT00000037806.3 UniProtKB/TrEMBL
  ENSSSCT00000093150.1 UniProtKB/TrEMBL
  ENSSSCT00000099908.1 UniProtKB/TrEMBL
  ENSSSCT00000101021.1 UniProtKB/TrEMBL
  ENSSSCT00000101685.1 UniProtKB/TrEMBL
  ENSSSCT00005046494.1 UniProtKB/TrEMBL
  ENSSSCT00005046517.1 UniProtKB/TrEMBL
  ENSSSCT00005046546.1 UniProtKB/TrEMBL
  ENSSSCT00005046610.1 UniProtKB/TrEMBL
  ENSSSCT00015000002.1 UniProtKB/TrEMBL
  ENSSSCT00015000003.1 UniProtKB/TrEMBL
  ENSSSCT00015000004.1 UniProtKB/TrEMBL
  ENSSSCT00015000005.1 UniProtKB/TrEMBL
  ENSSSCT00025085908.1 UniProtKB/TrEMBL
  ENSSSCT00025086209.1 UniProtKB/TrEMBL
  ENSSSCT00030055839.1 UniProtKB/TrEMBL
  ENSSSCT00030055861.1 UniProtKB/TrEMBL
  ENSSSCT00035095624.1 UniProtKB/TrEMBL
  ENSSSCT00035095638.1 UniProtKB/TrEMBL
  ENSSSCT00040103063.1 UniProtKB/TrEMBL
  ENSSSCT00045038558.1 UniProtKB/TrEMBL
  ENSSSCT00045038717.1 UniProtKB/TrEMBL
  ENSSSCT00045038894.1 UniProtKB/TrEMBL
  ENSSSCT00050072703.1 UniProtKB/TrEMBL
  ENSSSCT00050072707.1 UniProtKB/TrEMBL
  ENSSSCT00055055749.1 UniProtKB/TrEMBL
  ENSSSCT00055055852.1 UniProtKB/TrEMBL
  ENSSSCT00055055965.1 UniProtKB/TrEMBL
  ENSSSCT00060082146.1 UniProtKB/TrEMBL
  ENSSSCT00060082169.1 UniProtKB/TrEMBL
  ENSSSCT00060082223.1 UniProtKB/TrEMBL
  ENSSSCT00065049520.1 UniProtKB/TrEMBL
  ENSSSCT00065049530.1 UniProtKB/TrEMBL
  ENSSSCT00070033378.1 UniProtKB/TrEMBL
  ENSSSCT00070033391.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  3.20.20.190 UniProtKB/TrEMBL
InterPro Carb-bd-like_fold UniProtKB/TrEMBL
  CBM20_GPCPD1 UniProtKB/TrEMBL
  CBM_fam20 UniProtKB/TrEMBL
  GP_PDE_dom UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  PLC-like_Pdiesterase_TIM-brl UniProtKB/TrEMBL
NCBI Gene GPCPD1 ENTREZGENE
PANTHER GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE UniProtKB/TrEMBL
  PTHR22958:SF1 UniProtKB/TrEMBL
Pfam CBM_20 UniProtKB/TrEMBL
  GDPD UniProtKB/TrEMBL
PROSITE CBM20 UniProtKB/TrEMBL
  GP_PDE UniProtKB/TrEMBL
  PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
SMART CBM_2 UniProtKB/TrEMBL
Superfamily-SCOP SSF49452 UniProtKB/TrEMBL
  SSF51695 UniProtKB/TrEMBL
UniProt A0A287B7N9 ENTREZGENE, UniProtKB/TrEMBL
  A0A480JNR5 ENTREZGENE
  A0A4X1UH65 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1UI11_PIG UniProtKB/TrEMBL
  A0A8D0M9E3_PIG UniProtKB/TrEMBL
  A0A8D0MAW9_PIG UniProtKB/TrEMBL
  A0A8D1B6I4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1SFB6_PIG UniProtKB/TrEMBL
  A0A8D1WBH7_PIG UniProtKB/TrEMBL
  A0A8D1YHA9_PIG UniProtKB/TrEMBL
  A0A8W4FC06_PIG UniProtKB/TrEMBL
  A0A8W4FK95_PIG UniProtKB/TrEMBL
  A0A8W4FL36_PIG UniProtKB/TrEMBL
  A0A8W4FNR5_PIG UniProtKB/TrEMBL
UniProt Secondary A0A480JNR5 UniProtKB/TrEMBL
VGNC ID VGNC:96148 ENTREZGENE