Pdcd10 (programmed cell death 10) - Rat Genome Database

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Gene: Pdcd10 (programmed cell death 10) Rattus norvegicus
Analyze
Symbol: Pdcd10
Name: programmed cell death 10
RGD ID: 1359329
Description: Predicted to enable protein homodimerization activity and protein kinase binding activity. Involved in several processes, including cellular response to anoxia; positive regulation of mesenchymal cell apoptotic process; and short-term memory. Located in Golgi membrane and cell periphery. Biomarker of varicocele. Human ortholog(s) of this gene implicated in cerebral cavernous malformation 3. Orthologous to human PDCD10 (programmed cell death 10); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: MGC72992; programmed cell death protein 10; similar to programmed cell death 10
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82162,602,516 - 162,644,690 (-)NCBIGRCr8
mRatBN7.22160,303,465 - 160,346,086 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2160,303,449 - 160,346,018 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2167,476,398 - 167,518,511 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02165,480,684 - 165,522,792 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02160,113,470 - 160,155,584 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02173,966,701 - 174,012,730 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2173,967,080 - 174,012,676 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02193,304,862 - 193,348,032 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42166,402,652 - 166,445,015 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12166,352,757 - 166,395,121 (-)NCBI
Celera2154,499,050 - 154,540,946 (-)NCBICelera
Cytogenetic Map2q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
angiogenesis  (IEA)
apoptotic process  (IEA)
cellular response to anoxia  (IMP)
cellular response to leukemia inhibitory factor  (IEA,ISO)
establishment of Golgi localization  (IEA,ISO)
Golgi reassembly  (IBA,IEA,ISO)
intracellular signal transduction  (ISO)
intrinsic apoptotic signaling pathway in response to hydrogen peroxide  (IEA,ISO)
negative regulation of apoptotic process  (IEA,ISO,ISS)
negative regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis  (IEA,ISO)
negative regulation of cell migration involved in sprouting angiogenesis  (IEA,ISO)
negative regulation of gene expression  (IEA,ISO)
negative regulation of inflammatory response  (IMP)
positive regulation of cell migration  (IEA,ISO)
positive regulation of cell population proliferation  (IEA,ISO,ISS)
positive regulation of gene expression  (IEA,ISO)
positive regulation of intracellular protein transport  (IEA,ISO)
positive regulation of MAP kinase activity  (ISO,ISS)
positive regulation of mesenchymal cell apoptotic process  (IMP)
positive regulation of Notch signaling pathway  (IEA,ISO)
positive regulation of peptidyl-serine phosphorylation  (ISO)
positive regulation of protein serine/threonine kinase activity  (ISO)
positive regulation of stress-activated MAPK cascade  (IEA,ISO)
protein stabilization  (IEA,ISO)
regulation of Rho protein signal transduction  (ISO)
short-term memory  (IMP)
spermatogenesis  (IEP)
stress fiber assembly  (ISO)
wound healing, spreading of cells  (IEA,ISO)

Cellular Component
cell periphery  (IDA)
cytoplasm  (IDA,ISO)
cytosol  (IEA,ISO,ISS)
FAR/SIN/STRIPAK complex  (IBA,IEA,ISO)
Golgi apparatus  (IDA,ISO)
Golgi membrane  (IDA,IEA)
plasma membrane  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Emerging roles of CCM genes during tumorigenesis with potential application as novel biomarkers across major types of cancers. Abou-Fadel J, etal., Oncol Rep. 2020 Jun;43(6):1945-1963. doi: 10.3892/or.2020.7550. Epub 2020 Mar 18.
2. Mutations within the programmed cell death 10 gene cause cerebral cavernous malformations. Bergametti F, etal., Am J Hum Genet. 2005 Jan;76(1):42-51. doi: 10.1086/426952. Epub 2004 Nov 12.
3. PDCD10 gene mutations in multiple cerebral cavernous malformations. Cigoli MS, etal., PLoS One. 2014 Oct 29;9(10):e110438. doi: 10.1371/journal.pone.0110438. eCollection 2014.
4. Genotype-phenotype correlations in cerebral cavernous malformations patients. Denier C, etal., Ann Neurol. 2006 Nov;60(5):550-556. doi: 10.1002/ana.20947.
5. CCM3/PDCD10 stabilizes GCKIII proteins to promote Golgi assembly and cell orientation. Fidalgo M, etal., J Cell Sci. 2010 Apr 15;123(Pt 8):1274-84. doi: 10.1242/jcs.061341. Epub 2010 Mar 23.
6. Arsenic-induced anti-angiogenesis via miR-425-5p-regulated CCM3. Gao Y, etal., Toxicol Lett. 2016 Jul 8;254:22-31. doi: 10.1016/j.toxlet.2016.04.023. Epub 2016 Apr 27.
7. 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.
8. Mutations in apoptosis-related gene, PDCD10, cause cerebral cavernous malformation 3. Guclu B, etal., Neurosurgery. 2005 Nov;57(5):1008-13. doi: 10.1227/01.neu.0000180811.56157.e1.
9. Description of Two Families with New Mutations in Familial Cerebral Cavernous Malformations Genes. Iruzubieta P, etal., J Stroke Cerebrovasc Dis. 2021 Dec;30(12):106130. doi: 10.1016/j.jstrokecerebrovasdis.2021.106130. Epub 2021 Sep 29.
10. Concomitant activation of miR-107/PDCD10 and hypoxamir-210/Casp8ap2 and their role in cytoprotection during ischemic preconditioning of stem cells. Kim HW, etal., Antioxid Redox Signal. 2012 Oct 15;17(8):1053-65. doi: 10.1089/ars.2012.4518. Epub 2012 May 23.
11. Multiple dural lesions mimicking meningiomas in patients with CCM3/PDCD10 mutations. Labauge P, etal., Neurology. 2009 Jun 9;72(23):2044-6. doi: 10.1212/WNL.0b013e3181a92b13.
12. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
13. Cerebral cavernous malformation 3 relieves subarachnoid hemorrhage-induced neuroinflammation in rats through inhibiting NF-kB signaling pathway. Peng W, etal., Brain Res Bull. 2020 Jul;160:74-84. doi: 10.1016/j.brainresbull.2020.04.003. Epub 2020 Apr 14.
14. GOA pipeline RGD automated data pipeline
15. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. CCM3/SERPINI1 bidirectional promoter variants in patients with cerebral cavernous malformations: a molecular and functional study. Scimone C, etal., BMC Med Genet. 2016 Oct 13;17(1):74. doi: 10.1186/s12881-016-0332-0.
18. Exceptional aggressiveness of cerebral cavernous malformation disease associated with PDCD10 mutations. Shenkar R, etal., Genet Med. 2015 Mar;17(3):188-196. doi: 10.1038/gim.2014.97. Epub 2014 Aug 14.
19. 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.
20. Presence of the brain proteins cerebral cavernous malformation-2 and cerebral cavernous malformation-3 in rat testes and their potential role in experimental varicocele. Tanriover G, etal., Fertil Steril. 2010 May 15;93(8):2716-22. doi: 10.1016/j.fertnstert.2009.06.028. Epub 2009 Jul 31.
Additional References at PubMed
PMID:15489334   PMID:17360971   PMID:19056867   PMID:20439489   PMID:20458337   PMID:20489202   PMID:21561863   PMID:22291017   PMID:22652780   PMID:23376485   PMID:23388056   PMID:23533145  
PMID:23541896   PMID:27807006  


Genomics

Comparative Map Data
Pdcd10
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82162,602,516 - 162,644,690 (-)NCBIGRCr8
mRatBN7.22160,303,465 - 160,346,086 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2160,303,449 - 160,346,018 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2167,476,398 - 167,518,511 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02165,480,684 - 165,522,792 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02160,113,470 - 160,155,584 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02173,966,701 - 174,012,730 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2173,967,080 - 174,012,676 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02193,304,862 - 193,348,032 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42166,402,652 - 166,445,015 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12166,352,757 - 166,395,121 (-)NCBI
Celera2154,499,050 - 154,540,946 (-)NCBICelera
Cytogenetic Map2q32NCBI
PDCD10
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383167,683,298 - 167,734,892 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3167,683,298 - 167,734,939 (-)EnsemblGRCh38hg38GRCh38
GRCh373167,401,086 - 167,452,680 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363168,884,388 - 168,935,345 (-)NCBINCBI36Build 36hg18NCBI36
Build 343168,884,398 - 168,935,332NCBI
Celera3165,800,144 - 165,851,087 (-)NCBICelera
Cytogenetic Map3q26.1NCBI
HuRef3164,771,770 - 164,822,713 (-)NCBIHuRef
CHM1_13167,364,579 - 167,415,523 (-)NCBICHM1_1
T2T-CHM13v2.03170,467,195 - 170,518,819 (-)NCBIT2T-CHM13v2.0
Pdcd10
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39375,423,797 - 75,464,159 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl375,423,797 - 75,464,163 (-)EnsemblGRCm39 Ensembl
GRCm38375,516,490 - 75,556,852 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl375,516,490 - 75,556,856 (-)EnsemblGRCm38mm10GRCm38
MGSCv37375,320,412 - 75,360,721 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36375,602,416 - 75,642,726 (-)NCBIMGSCv36mm8
Celera375,581,629 - 75,621,940 (-)NCBICelera
Cytogenetic Map3E3NCBI
cM Map333.76NCBI
Pdcd10
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544816,864,031 - 16,887,626 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544816,866,577 - 16,887,215 (-)NCBIChiLan1.0ChiLan1.0
PDCD10
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22165,583,937 - 165,635,162 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13165,588,664 - 165,639,889 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03164,703,909 - 164,755,085 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13172,760,923 - 172,811,900 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3172,760,923 - 172,811,430 (-)Ensemblpanpan1.1panPan2
PDCD10
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13432,512,109 - 32,553,524 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3432,512,112 - 32,553,445 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3441,592,572 - 41,634,550 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03432,590,535 - 32,632,534 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3432,584,275 - 32,632,464 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13432,535,691 - 32,577,676 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03432,496,175 - 32,538,163 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03432,767,820 - 32,809,818 (-)NCBIUU_Cfam_GSD_1.0
Pdcd10
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560298,930,028 - 98,971,364 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365934,651,114 - 4,692,534 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365934,650,624 - 4,693,387 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDCD10
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13106,517,432 - 106,558,895 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113106,517,408 - 106,558,959 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213115,080,081 - 115,120,768 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PDCD10
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11521,697,366 - 21,748,760 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1521,706,675 - 21,749,470 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606330,541,167 - 30,592,646 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pdcd10
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473045,654,022 - 45,678,745 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473045,653,470 - 45,698,461 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pdcd10
146 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:310
Count of miRNA genes:201
Interacting mature miRNAs:232
Transcripts:ENSRNOT00000013585
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
6907363Bp357Blood pressure QTL 3574.10.002arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2129540907174540907Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2136445150202447032Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)218960362228801039Rat
152025245Scl81Serum cholesterol level QTL 813.49blood cholesterol amount (VT:0000180)2122609194206936711Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
12879836Kidm61Kidney mass QTL 610.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2152413072185122374Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2143657411190602963Rat
12879837Am2Aortic mass QTL 20.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2152413072185122374Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2157142209202446871Rat
12879838Cm86Cardiac mass QTL 860.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2152413072185122374Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
12879839Cm85Cardiac mass QTL 850.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2152413072185122374Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2135552573202446871Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)2157142078211086598Rat
12879845Cm89Cardiac mass QTL 890.008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2152413072175950118Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527185876470Rat
12879846Cm90Cardiac mass QTL 900.011heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)2152413072175950118Rat
12879847Am4Aortic mass QTL 40.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2152413072175950118Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
12879840Bw179Body weight QTL 1790.005body mass (VT:0001259)body weight (CMO:0000012)2152413072185122374Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2136916935189599348Rat
1359032Hrtrt18Heart rate QTL 18heart pumping trait (VT:2000009)heart rate (CMO:0000002)2157142078192625452Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150540301202447032Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150341684202446871Rat
2301415Cm67Cardiac mass QTL 670.003heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2152413072175950118Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2141596551202447032Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
11565180Kidm56Kidney mass QTL 560.003kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2152413072175950118Rat
1598805Memor8Memory QTL 83exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2150341585189039377Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
11565181Bw176Body weight QTL 1760.002body mass (VT:0001259)body weight (CMO:0000012)2152413072175950118Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2143157029210020885Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2133914684202447032Rat
61401Niddm2Non-insulin dependent diabetes mellitus QTL 24.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2144599348189599348Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
738007Anxrr7Anxiety related response QTL 74.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2118189491163189491Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2150540301202447032Rat
631520Bp73Blood pressure QTL 730.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147686913168355276Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147798556192798556Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
6903312Bw112Body weight QTL 1123.20.0013body mass (VT:0001259)body weight (CMO:0000012)2143657569184114274Rat
152025206Hrtrt23Heart rate QTL 235.98heart pumping trait (VT:2000009)228484589169504100Rat
152025204Hrtrt22Heart rate QTL 225.6heart pumping trait (VT:2000009)228484589169504100Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000013585   ⟹   ENSRNOP00000013585
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2160,304,062 - 160,345,995 (-)Ensembl
Rnor_6.0 Ensembl2173,967,080 - 174,012,676 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000103849   ⟹   ENSRNOP00000093534
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2160,303,449 - 160,346,018 (-)Ensembl
RefSeq Acc Id: NM_001009542   ⟹   NP_001009542
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82162,602,516 - 162,644,612 (-)NCBI
mRatBN7.22160,303,910 - 160,346,008 (-)NCBI
Rnor_6.02173,967,080 - 174,012,676 (-)NCBI
Rnor_5.02193,304,862 - 193,348,032 (-)NCBI
RGSC_v3.42166,402,652 - 166,445,015 (-)RGD
Celera2154,499,050 - 154,540,946 (-)RGD
Sequence:
RefSeq Acc Id: XM_006232501   ⟹   XP_006232563
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82162,602,516 - 162,644,690 (-)NCBI
mRatBN7.22160,303,465 - 160,346,086 (-)NCBI
Rnor_6.02173,966,701 - 174,012,730 (-)NCBI
Rnor_5.02193,304,862 - 193,348,032 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001009542 (Get FASTA)   NCBI Sequence Viewer  
  XP_006232563 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH67245 (Get FASTA)   NCBI Sequence Viewer  
  EDM00884 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000013585.4
  ENSRNOP00000093534.1
GenBank Protein Q6NX65 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001009542   ⟸   NM_001009542
- UniProtKB: Q6NX65 (UniProtKB/Swiss-Prot),   A6J5Q5 (UniProtKB/TrEMBL),   A0A8I6AJ47 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006232563   ⟸   XM_006232501
- Peptide Label: isoform X1
- UniProtKB: Q6NX65 (UniProtKB/Swiss-Prot),   A6J5Q5 (UniProtKB/TrEMBL),   A0A8I6AJ47 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000013585   ⟸   ENSRNOT00000013585
Ensembl Acc Id: ENSRNOP00000093534   ⟸   ENSRNOT00000103849
Protein Domains
Programmed cell death protein 10 dimerisation

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6NX65-F1-model_v2 AlphaFold Q6NX65 1-210 view protein structure

Transcriptome

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

Promoters
RGD ID:13691381
Promoter ID:EPDNEW_R1905
Type:initiation region
Name:Pdcd10_1
Description:programmed cell death 10
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_6.02174,012,686 - 174,012,746EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359329 AgrOrtholog
BioCyc Gene G2FUF-52771 BioCyc
Ensembl Genes ENSRNOG00000010147 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013585.5 UniProtKB/TrEMBL
  ENSRNOT00000103849.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.12.70 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleotidyltransferases domain 2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6888212 IMAGE-MGC_LOAD
InterPro PDC10_dimerisation_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDCD10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDCD10_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:494345 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72992 IMAGE-MGC_LOAD
NCBI Gene 494345 ENTREZGENE
PANTHER PROGRAMMED CELL DEATH PROTEIN 10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR13250 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DUF1241 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDCD10_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pdcd10 PhenoGen
RatGTEx ENSRNOG00000010147 RatGTEx
UniProt A0A8I6AJ47 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2UIL5_RAT UniProtKB/TrEMBL
  A6J5Q5 ENTREZGENE, UniProtKB/TrEMBL
  PDC10_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Pdcd10  programmed cell death 10  MGC72992  similar to programmed cell death 10  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-29 MGC72992  similar to programmed cell death 10      Symbol and Name status set to provisional 70820 PROVISIONAL