Ptcd3 (Pentatricopeptide repeat domain 3) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Ptcd3 (Pentatricopeptide repeat domain 3) Rattus norvegicus
Analyze
Symbol: Ptcd3
Name: Pentatricopeptide repeat domain 3
RGD ID: 1565582
Description: Predicted to enable rRNA binding activity and ribosomal small subunit binding activity. Predicted to be involved in mitochondrial translation. Predicted to be located in mitochondrial matrix. Predicted to be part of ribonucleoprotein complex. Predicted to be active in mitochondrion. Human ortholog(s) of this gene implicated in combined oxidative phosphorylation deficiency 51. Orthologous to human PTCD3 (pentatricopeptide repeat domain 3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; Soman.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC500199; MGC112724; pentatricopeptide repeat domain-containing protein 3, mitochondrial; pentatricopeptide repeat-containing protein 3, mitochondrial; similar to RIKEN cDNA 2810422B04; small ribosomal subunit protein mS39
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84105,480,699 - 105,508,007 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4105,480,709 - 105,513,276 (-)EnsemblGRCr8
mRatBN7.24103,922,440 - 103,957,445 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4103,920,566 - 103,957,538 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4109,302,272 - 109,329,594 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04105,077,394 - 105,104,710 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04103,692,346 - 103,719,632 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0499,795,646 - 99,822,960 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl499,795,656 - 99,822,992 (-)Ensemblrn6Rnor6.0
Rnor_5.04164,570,737 - 164,600,868 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44105,159,834 - 105,187,103 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera493,078,738 - 93,106,021 (-)NCBICelera
Cytogenetic Map4q32NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. 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.
Additional References at PubMed
PMID:18614015   PMID:19427859   PMID:22658674   PMID:22681889   PMID:31505169  


Genomics

Comparative Map Data
Ptcd3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84105,480,699 - 105,508,007 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4105,480,709 - 105,513,276 (-)EnsemblGRCr8
mRatBN7.24103,922,440 - 103,957,445 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4103,920,566 - 103,957,538 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4109,302,272 - 109,329,594 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04105,077,394 - 105,104,710 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04103,692,346 - 103,719,632 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0499,795,646 - 99,822,960 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl499,795,656 - 99,822,992 (-)Ensemblrn6Rnor6.0
Rnor_5.04164,570,737 - 164,600,868 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44105,159,834 - 105,187,103 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera493,078,738 - 93,106,021 (-)NCBICelera
Cytogenetic Map4q32NCBI
PTCD3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38286,106,235 - 86,142,157 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl286,106,223 - 86,142,157 (+)Ensemblhg38GRCh38
GRCh37286,333,358 - 86,369,280 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36286,186,849 - 86,222,791 (+)NCBIBuild 36Build 36hg18NCBI36
Celera286,161,451 - 86,197,422 (+)NCBICelera
Cytogenetic Map2p11.2NCBI
HuRef286,230,802 - 86,266,770 (+)NCBIHuRef
CHM1_1286,262,762 - 86,298,735 (+)NCBICHM1_1
T2T-CHM13v2.0286,108,305 - 86,144,223 (+)NCBIT2T-CHM13v2.0
Ptcd3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39671,857,622 - 71,886,080 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl671,857,622 - 71,885,734 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38671,880,638 - 71,908,773 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl671,880,638 - 71,908,750 (-)Ensemblmm10GRCm38
MGSCv37671,830,632 - 71,858,756 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36671,810,143 - 71,838,271 (-)NCBIMGSCv36mm8
Celera673,964,270 - 73,992,389 (-)NCBICelera
Cytogenetic Map6C1NCBI
cM Map632.21NCBI
Ptcd3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554241,481,393 - 1,508,495 (-)Ensembl
ChiLan1.0NW_0049554241,480,934 - 1,507,621 (-)NCBIChiLan1.0ChiLan1.0
PTCD3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21240,243,089 - 40,277,626 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A40,245,850 - 40,280,387 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A86,157,741 - 86,192,227 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A87,705,389 - 87,740,432 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A87,705,389 - 87,740,432 (+)EnsemblpanPan2panpan1.1
PTCD3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11738,970,385 - 39,000,370 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1738,970,340 - 39,000,329 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1738,656,056 - 38,686,034 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01739,703,585 - 39,733,559 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1739,702,814 - 39,733,516 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11738,872,110 - 38,902,087 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01738,907,905 - 38,937,849 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01739,294,174 - 39,324,153 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ptcd3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629279,527,715 - 79,553,363 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367121,305,054 - 1,330,757 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049367121,305,085 - 1,330,705 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTCD3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl358,628,614 - 58,670,760 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1358,632,214 - 58,670,785 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2361,492,646 - 61,530,066 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PTCD3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11421,019,249 - 21,050,453 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1421,015,333 - 21,050,453 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604591,437,521 - 91,468,764 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ptcd3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474917,108,669 - 17,138,692 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474917,107,169 - 17,138,112 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Ptcd3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1674,906,793 - 74,934,036 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ptcd3
152 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:271
Count of miRNA genes:192
Interacting mature miRNAs:212
Transcripts:ENSRNOT00000012622
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)486583980149763391Rat
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)496731383141731383Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)439431983123203361Rat
1578655Bmd11Bone mineral density QTL 1111femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)492406430137406430Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
631556Bp135Blood pressure QTL 1350.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)480212111119233320Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)426234499134199155Rat
70167Bw22Body weight QTL 223.1body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)471647492116647492Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482944895154403548Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)427862204126119996Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)475939858140508796Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)465060960127749483Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)445429897149763204Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)451085655113588029Rat
1578670Bss14Bone structure and strength QTL 1416.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)488883695133883695Rat
2317588Eae27Experimental allergic encephalomyelitis QTL 27nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)469036742114036742Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)440490442117737312Rat
70201Gcr1Gastric cancer resistance QTL 12.7stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)4103834277148834277Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)457613339151163960Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
1578662Bss15Bone structure and strength QTL 1519.6femur width (VT:1000666)femoral neck width (CMO:0001695)488883695133883695Rat
2306547Iddm38Insulin dependent diabetes mellitus QTL 38blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)468353567113353567Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
2306545Iddm39Insulin dependent diabetes mellitus QTL 39blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)478687630123687630Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)494638356168870820Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)474169813134199155Rat
634334Xhs3X-ray hypersensitivity QTL 310intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)486058928131411333Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)475939858140508796Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)445429897149763204Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45889999148002343Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)4100752691179366077Rat
631662Hcar2Hepatocarcinoma resistance QTL 23.10.0003liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)484349032129349032Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)445429709157555683Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463245026129846354Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)464209744109209744Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)486709649168870974Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)457664252127749483Rat
2306899Bp338Blood pressure QTL 3380.071arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)482336765127336765Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)465495851159259805Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
12798523Anxrr56Anxiety related response QTL 562.830.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)486583980131583980Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463224393108224393Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)433538597116185060Rat

Markers in Region
RH138322  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24103,939,969 - 103,940,141 (+)MAPPERmRatBN7.2
Rnor_6.0499,813,171 - 99,813,342NCBIRnor6.0
Rnor_5.04164,591,067 - 164,591,238UniSTSRnor5.0
RGSC_v3.44105,177,343 - 105,177,514UniSTSRGSC3.4
Celera493,096,263 - 93,096,434UniSTS
RH 3.4 Map4629.04UniSTS
Cytogenetic Map4q33UniSTS
RH132694  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24103,922,575 - 103,922,773 (+)MAPPERmRatBN7.2
Rnor_6.0499,795,782 - 99,795,979NCBIRnor6.0
Rnor_5.04164,573,678 - 164,573,875UniSTSRnor5.0
RGSC_v3.44105,159,970 - 105,160,167UniSTSRGSC3.4
Celera493,078,874 - 93,079,071UniSTS
RH 3.4 Map4630.14UniSTS
Cytogenetic Map4q33UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000012622   ⟹   ENSRNOP00000012622
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4105,481,573 - 105,508,206 (-)Ensembl
mRatBN7.2 Ensembl4103,920,566 - 103,957,538 (-)Ensembl
Rnor_6.0 Ensembl499,796,166 - 99,822,879 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000078123   ⟹   ENSRNOP00000070424
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4105,480,709 - 105,495,323 (-)Ensembl
mRatBN7.2 Ensembl4103,922,450 - 103,937,069 (-)Ensembl
Rnor_6.0 Ensembl499,795,656 - 99,810,270 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000078991   ⟹   ENSRNOP00000068923
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4105,480,709 - 105,507,982 (-)Ensembl
mRatBN7.2 Ensembl4103,922,465 - 103,949,689 (-)Ensembl
Rnor_6.0 Ensembl499,795,967 - 99,822,992 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000094038   ⟹   ENSRNOP00000080568
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4105,480,709 - 105,513,276 (-)Ensembl
mRatBN7.2 Ensembl4103,922,446 - 103,957,538 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000117113   ⟹   ENSRNOP00000077319
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4105,480,709 - 105,508,206 (-)Ensembl
mRatBN7.2 Ensembl4103,922,440 - 103,957,538 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000117174   ⟹   ENSRNOP00000095509
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4105,480,709 - 105,507,124 (-)Ensembl
mRatBN7.2 Ensembl4103,922,440 - 103,948,870 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000118960   ⟹   ENSRNOP00000097950
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4105,480,709 - 105,508,206 (-)Ensembl
mRatBN7.2 Ensembl4103,922,446 - 103,957,538 (-)Ensembl
RefSeq Acc Id: NM_001134718   ⟹   NP_001128190
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84105,480,699 - 105,507,982 (-)NCBI
mRatBN7.24103,922,440 - 103,949,728 (-)NCBI
Rnor_6.0499,795,646 - 99,822,929 (-)NCBI
Rnor_5.04164,570,737 - 164,600,868 (-)NCBI
RGSC_v3.44105,159,834 - 105,187,103 (-)RGD
Celera493,078,738 - 93,106,021 (-)RGD
Sequence:
RefSeq Acc Id: XM_039108141   ⟹   XP_038964069
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84105,480,699 - 105,508,007 (-)NCBI
mRatBN7.24103,922,440 - 103,957,445 (-)NCBI
RefSeq Acc Id: XM_039108144   ⟹   XP_038964072
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84105,480,699 - 105,507,734 (-)NCBI
mRatBN7.24103,922,440 - 103,949,425 (-)NCBI
RefSeq Acc Id: XM_039108145   ⟹   XP_038964073
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84105,483,348 - 105,508,007 (-)NCBI
mRatBN7.24103,925,107 - 103,957,445 (-)NCBI
RefSeq Acc Id: XM_063286518   ⟹   XP_063142588
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84105,481,595 - 105,508,007 (-)NCBI
RefSeq Acc Id: XR_010065693
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84105,493,052 - 105,508,007 (-)NCBI
RefSeq Acc Id: NP_001128190   ⟸   NM_001134718
- UniProtKB: A0A0G2JU15 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000012622   ⟸   ENSRNOT00000012622
Ensembl Acc Id: ENSRNOP00000070424   ⟸   ENSRNOT00000078123
Ensembl Acc Id: ENSRNOP00000068923   ⟸   ENSRNOT00000078991
RefSeq Acc Id: XP_038964069   ⟸   XM_039108141
- Peptide Label: isoform X1
- UniProtKB: A0A8I6ANU2 (UniProtKB/TrEMBL),   A0A8I6G4Q3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038964072   ⟸   XM_039108144
- Peptide Label: isoform X2
- UniProtKB: A0A0G2JU15 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038964073   ⟸   XM_039108145
- Peptide Label: isoform X4
Ensembl Acc Id: ENSRNOP00000080568   ⟸   ENSRNOT00000094038
Ensembl Acc Id: ENSRNOP00000097950   ⟸   ENSRNOT00000118960
Ensembl Acc Id: ENSRNOP00000077319   ⟸   ENSRNOT00000117113
Ensembl Acc Id: ENSRNOP00000095509   ⟸   ENSRNOT00000117174
RefSeq Acc Id: XP_063142588   ⟸   XM_063286518
- Peptide Label: isoform X3
- UniProtKB: D3ZGM1 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JU15-F1-model_v2 AlphaFold A0A0G2JU15 1-747 view protein structure

Transcriptome

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

Promoters
RGD ID:13693119
Promoter ID:EPDNEW_R3644
Type:multiple initiation site
Name:Ptcd3_1
Description:Pentatricopeptide repeat domain 3
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_6.0499,822,889 - 99,822,949EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565582 AgrOrtholog
BioCyc Gene G2FUF-44175 BioCyc
Ensembl Genes ENSRNOG00000009484 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000012622 ENTREZGENE
  ENSRNOT00000012622.9 UniProtKB/TrEMBL
  ENSRNOT00000078123.3 UniProtKB/TrEMBL
  ENSRNOT00000078991 ENTREZGENE
  ENSRNOT00000078991.3 UniProtKB/TrEMBL
  ENSRNOT00000094038.2 UniProtKB/TrEMBL
  ENSRNOT00000117113.2 UniProtKB/TrEMBL
  ENSRNOT00000117174.2 UniProtKB/TrEMBL
  ENSRNOT00000118960 ENTREZGENE
  ENSRNOT00000118960.2 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/TrEMBL
InterPro Pentatricopeptide_repeat UniProtKB/TrEMBL
  PTCD3 UniProtKB/TrEMBL
  Rib_mS39_PPR UniProtKB/TrEMBL
  TPR-like_helical_dom_sf UniProtKB/TrEMBL
NCBI Gene 500199 ENTREZGENE
PANTHER PENTATRICOPEPTIDE REPEAT DOMAIN-CONTAINING PROTEIN 3, MITOCHONDRIAL UniProtKB/TrEMBL
  PTHR16276 UniProtKB/TrEMBL
Pfam PPR_3 UniProtKB/TrEMBL
  Rib_mS39_PPR UniProtKB/TrEMBL
PhenoGen Ptcd3 PhenoGen
RatGTEx ENSRNOG00000009484 RatGTEx
UniProt A0A0G2JU15 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZK99_RAT UniProtKB/TrEMBL
  A0A8I6ANP8_RAT UniProtKB/TrEMBL
  A0A8I6ANU2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6G4Q3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZGM1 ENTREZGENE, UniProtKB/TrEMBL
  Q4KM70_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-05 Ptcd3  Pentatricopeptide repeat domain 3  LOC500199  similar to RIKEN cDNA 2810422B04  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC500199  similar to RIKEN cDNA 2810422B04      Symbol and Name status set to provisional 70820 PROVISIONAL