PDCD1 (programmed cell death 1) - Rat Genome Database

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Gene: PDCD1 (programmed cell death 1) Chlorocebus sabaeus
Analyze
Symbol: PDCD1
Name: programmed cell death 1
RGD ID: 18493263
Description: ENCODES a protein that exhibits signaling receptor activity (inferred); INVOLVED IN B cell apoptotic process (ortholog); negative regulation of B cell apoptotic process (ortholog); negative regulation of tolerance induction (ortholog); ASSOCIATED WITH acute myeloid leukemia (ortholog); acute myocarditis (ortholog); anogenital venereal wart (ortholog); FOUND IN external side of plasma membrane (inferred); membrane (inferred); plasma membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: programmed cell death protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110127,877,383 - 127,886,234 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10127,878,554 - 127,886,088 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604071,433,325 - 71,442,153 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


1 to 20 of 80 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
PDCD1Green Monkeyacute myeloid leukemia treatmentISOPdcd1 (Mus musculus)9068941 RGDPMID:26712908 and REF_RGD_ID:41410789
PDCD1Green Monkeyacute myocarditis severityISOPdcd1 (Mus musculus)9068941associated with Coxsackievirus InfectionsRGDPMID:17434153 and REF_RGD_ID:40822819
PDCD1Green Monkeyacute myocarditis treatmentISOPdcd1 (Mus musculus)9068941associated with Coxsackievirus InfectionsRGDPMID:17434153 and REF_RGD_ID:40822819
PDCD1Green Monkeyanogenital venereal wart  ISOPDCD1 (Homo sapiens)9068941mRNA and protein:increased expression:multiple (human)RGDPMID:23754510 and REF_RGD_ID:40400714
PDCD1Green Monkeyanti-basement membrane glomerulonephritis treatmentISOPdcd1 (Rattus norvegicus)9068941 RGDPMID:21965585 and REF_RGD_ID:7248671
PDCD1Green Monkeyasthma treatmentISOPdcd1 (Mus musculus)9068941associated with Chlamydia pneumoniaRGDPMID:26378990 and REF_RGD_ID:41412180
PDCD1Green Monkeyautoimmune hepatitis  ISOPDCD1 (Homo sapiens)9068941 RGDPMID:23869988 and REF_RGD_ID:40818236
PDCD1Green Monkeyautoimmune hepatitis  ISOPdcd1 (Mus musculus)9068941 RGDPMID:19781375 and REF_RGD_ID:41412171
PDCD1Green MonkeyBurns treatmentISOPdcd1 (Mus musculus)9068941associated with Pseudomonas InfectionsRGDPMID:29345058 and REF_RGD_ID:41410788
PDCD1Green Monkeycervix uteri carcinoma in situ severityISOPDCD1 (Homo sapiens)9068941associated with Papillomavirus Infections and protein:increased expression:T cellRGDPMID:23521696 and REF_RGD_ID:40822817
PDCD1Green MonkeyChlamydia pneumonia  ISOPdcd1 (Mus musculus)9068941mRNA:increased expression:lungRGDPMID:26378990 and REF_RGD_ID:41412180
PDCD1Green MonkeyChronic Hepatitis B no_associationISOPDCD1 (Homo sapiens)9068941DNA:SNPs::+7146 G>A and +7209 C>T(human)RGDPMID:25736598 and REF_RGD_ID:40818233
PDCD1Green MonkeyChronic Hepatitis B  ISOPDCD1 (Homo sapiens)9068941mRNA:increased expression:liver parenchyma (human)RGDPMID:22634051 and REF_RGD_ID:36947881
PDCD1Green MonkeyChronic Hepatitis B  ISOPDCD1 (Homo sapiens)9068941DNA:SNP:exon:RGDPMID:20700634 and REF_RGD_ID:40818262
PDCD1Green MonkeyChronic Hepatitis B  ISOPDCD1 (Homo sapiens)9068941protein:altered expression:serum:RGDPMID:28983583 and REF_RGD_ID:40818415
PDCD1Green MonkeyChronic Hepatitis B disease_progressionISOPDCD1 (Homo sapiens)9068941DNA:SNP:3' UTR:rs10204525(human)RGDPMID:30016557 and REF_RGD_ID:40818231
PDCD1Green MonkeyColonic Neoplasms treatmentISOPdcd1 (Mus musculus)9068941 RGDPMID:19208793 and REF_RGD_ID:9589070
PDCD1Green MonkeyColorectal Neoplasms  ISOPdcd1 (Rattus norvegicus)9068941protein:increased expression:colonic mucosa and lymphocyteRGDPMID:24165459 and REF_RGD_ID:9589083
PDCD1Green Monkeycryptococcal meningitis treatmentISOPdcd1 (Mus musculus)9068941 RGDPMID:29058791 and REF_RGD_ID:41412178
PDCD1Green Monkeycryptococcal meningitis treatmentISOPDCD1 (Homo sapiens)9068941 RGDPMID:29058791 and REF_RGD_ID:41412178
1 to 20 of 80 rows
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
PDCD1Green MonkeyAUTOIMMUNE DISEASE WITH SUSCEPTIBILITY TO MYCOBACTERIUM TUBERCULOSIS  ISOPDCD1 (Homo sapiens)8554872ClinVar Annotator: match by term: AUTOIMMUNE DISEASE WITH SUSCEPTIBILITY TO MYCOBACTERIUM TUBERCULOSISClinVarPMID:34183838
PDCD1Green MonkeyBethlem Myopathy 1A  ISOPDCD1 (Homo sapiens)8554872ClinVar Annotator: match by term: Bethlem myopathy 1AClinVarPMID:26004199 and PMID:28492532
PDCD1Green Monkeychromosome 2q37 deletion syndrome  ISOPDCD1 (Homo sapiens)8554872ClinVar Annotator: match by term: Chromosome 2q37 deletion syndromeClinVarPMID:25741868
PDCD1Green MonkeyD-2-hydroxyglutaric aciduria 1  ISOPDCD1 (Homo sapiens)8554872ClinVar Annotator: match by term: D-2-hydroxyglutaric aciduria 1ClinVarPMID:16081310 more ...
PDCD1Green Monkeyhereditary spastic paraplegia 30  ISOPDCD1 (Homo sapiens)8554872ClinVar Annotator: match by term: Hereditary spastic paraplegia 30ClinVarPMID:16081310 more ...
PDCD1Green Monkeyintellectual disability  ISOPDCD1 (Homo sapiens)8554872ClinVar Annotator: match by term: Intellectual disabilityClinVar 
PDCD1Green Monkeymultiple sclerosis  ISOPDCD1 (Homo sapiens)8554872ClinVar Annotator: match by term: PDCD1-related conditionClinVarPMID:25741868
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
PDCD1Green MonkeyGraves' disease  ISOPDCD1 (Homo sapiens)9068941CTD Direct Evidence: marker/mechanismCTDPMID:33132244
PDCD1Green MonkeyLung Neoplasms  ISOPDCD1 (Homo sapiens)9068941CTD Direct Evidence: marker/mechanismCTDPMID:34166680
PDCD1Green Monkeymelanoma  ISOPDCD1 (Homo sapiens)9068941CTD Direct Evidence: therapeuticCTDPMID:21802280
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
PDCD1Green Monkeydilated cardiomyopathy  ISOPdcd1 (Mus musculus)9068941 MouseDO 
PDCD1Green Monkeysystemic lupus erythematosus  ISOPdcd1 (Mus musculus)9068941OMIM:152700 more ...MouseDO 
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
PDCD1Green MonkeyAUTOIMMUNE DISEASE WITH SUSCEPTIBILITY TO MYCOBACTERIUM TUBERCULOSIS susceptibilityISOPDCD1 (Homo sapiens)7240710 OMIM 


Biological Process
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Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
PDCD1Green Monkeyexternal side of plasma membrane located_inIEAPANTHER:PTN000392075150520179 TreeGrafterGO_REF:0000118
PDCD1Green Monkeymembrane located_inIEAUniProtKB-KW:KW-0472150520179 UniProtGO_REF:0000043
PDCD1Green Monkeymembrane located_inIEAInterPro:IPR042379150520179 InterProGO_REF:0000002
PDCD1Green Monkeyplasma membrane is_active_inIEAUniProtKB:Q15116 and ensembl:ENSP00000335062150520179 EnsemblGO_REF:0000107

Molecular Function
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PMID:30032202  



PDCD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110127,877,383 - 127,886,234 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10127,878,554 - 127,886,088 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604071,433,325 - 71,442,153 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
PDCD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382241,849,884 - 241,858,894 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2241,849,884 - 241,858,894 (-)EnsemblGRCh38hg38GRCh38
GRCh372242,792,036 - 242,801,046 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362242,440,711 - 242,449,731 (-)NCBINCBI36Build 36hg18NCBI36
Celera2236,456,683 - 236,465,707 (-)NCBICelera
Cytogenetic Map2q37.3NCBI
HuRef2234,541,510 - 234,550,535 (-)NCBIHuRef
CHM1_12242,797,131 - 242,806,156 (-)NCBICHM1_1
T2T-CHM13v2.02242,351,431 - 242,360,440 (-)NCBIT2T-CHM13v2.0
Pdcd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39193,966,027 - 93,980,278 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl193,966,027 - 93,980,278 (-)EnsemblGRCm39 Ensembl
GRCm38194,038,305 - 94,052,553 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl194,038,305 - 94,052,553 (-)EnsemblGRCm38mm10GRCm38
MGSCv37195,934,882 - 95,949,130 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36195,868,711 - 95,882,959 (-)NCBIMGSCv36mm8
Celera196,903,284 - 96,917,529 (-)NCBICelera
Cytogenetic Map1DNCBI
cM Map147.47NCBI
Pdcd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89101,866,124 - 101,879,278 (-)NCBIGRCr8
mRatBN7.2994,418,786 - 94,431,945 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl994,418,791 - 94,431,937 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9102,854,260 - 102,867,404 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09107,989,476 - 108,002,637 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09106,346,469 - 106,359,638 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.09101,305,742 - 101,319,937 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9101,307,764 - 101,319,845 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl9101,025,313 - 101,038,625 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09100,676,274 - 100,690,991 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4993,172,543 - 93,185,687 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera991,952,891 - 91,966,035 (-)NCBICelera
Cytogenetic Map9q36NCBI
Pdcd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495554249,259 - 58,823 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495554249,290 - 57,747 (+)NCBIChiLan1.0ChiLan1.0
PDCD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213144,543,641 - 144,553,063 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B144,558,538 - 144,568,773 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012130,849,353 - 130,858,776 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PDCD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12551,606,559 - 51,618,903 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2551,608,173 - 51,618,723 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2551,830,362 - 51,840,346 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02551,809,256 - 51,820,132 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2551,809,263 - 51,823,016 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12551,659,966 - 51,669,894 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02551,399,146 - 51,409,148 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02551,676,302 - 51,686,322 (-)NCBIUU_Cfam_GSD_1.0
Pdcd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303193,055,706 - 193,066,914 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936745152,612 - 161,587 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936745152,571 - 163,712 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDCD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15140,336,258 - 140,347,478 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115140,337,353 - 140,347,493 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Pdcd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248475,732,767 - 5,742,269 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248475,732,922 - 5,741,908 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in PDCD1
224 total Variants



ectoderm
endocrine system
hemolymphoid system
mesenchyme
mesoderm
nervous system
reproductive system
57 36 20 36 36 41 20



Ensembl Acc Id: ENSCSAT00000003769   ⟹   ENSCSAP00000002041
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl10127,878,554 - 127,886,088 (-)Ensembl
RefSeq Acc Id: XM_007967026   ⟹   XP_007965217
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.110127,877,383 - 127,883,701 (-)NCBI
Vero_WHO_p1.0NW_02366604071,435,614 - 71,442,153 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007967027   ⟹   XP_007965218
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.110127,877,383 - 127,883,701 (-)NCBI
Vero_WHO_p1.0NW_02366604071,435,614 - 71,442,153 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007967029   ⟹   XP_007965220
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.110127,877,383 - 127,886,228 (-)NCBI
Vero_WHO_p1.0NW_02366604071,433,325 - 71,442,153 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007967030   ⟹   XP_007965221
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.110127,877,384 - 127,886,229 (-)NCBI
Vero_WHO_p1.0NW_02366604071,433,325 - 71,442,153 (+)NCBI
Sequence:
Protein RefSeqs XP_007965217 (Get FASTA)   NCBI Sequence Viewer  
  XP_007965218 (Get FASTA)   NCBI Sequence Viewer  
  XP_007965220 (Get FASTA)   NCBI Sequence Viewer  
  XP_007965221 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000002041
  ENSCSAP00000002041.1
RefSeq Acc Id: XP_007965220   ⟸   XM_007967029
- Peptide Label: isoform X3
- UniProtKB: A0A0D9R0A2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007965218   ⟸   XM_007967027
- Peptide Label: isoform X2
RefSeq Acc Id: XP_007965217   ⟸   XM_007967026
- Peptide Label: isoform X1
RefSeq Acc Id: XP_007965221   ⟸   XM_007967030
- Peptide Label: isoform X4
Ensembl Acc Id: ENSCSAP00000002041   ⟸   ENSCSAT00000003769



1 to 18 of 18 rows
Database
Acc Id
Source(s)
Ensembl Genes ENSCSAG00000005736 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000003769.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
  PDCD1 UniProtKB/TrEMBL
NCBI Gene PDCD1 ENTREZGENE
PANTHER PROGRAMMED CELL DEATH PROTEIN 1 UniProtKB/TrEMBL
  PTHR15264 UniProtKB/TrEMBL
Pfam V-set UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
SMART IGv UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt A0A0D9R0A2 ENTREZGENE, UniProtKB/TrEMBL
1 to 18 of 18 rows