Dppa3 (developmental pluripotency-associated 3) - Rat Genome Database

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Gene: Dppa3 (developmental pluripotency-associated 3) Rattus norvegicus
Analyze
Symbol: Dppa3
Name: developmental pluripotency-associated 3
RGD ID: 1310932
Description: Predicted to enable methylated histone binding activity. Predicted to be involved in epigenetic programing of female pronucleus and negative regulation of DNA demethylation. Predicted to act upstream of or within embryonic cleavage. Predicted to be located in cytoplasm; female pronucleus; and male pronucleus. Predicted to be part of chromatin. Predicted to be active in nucleus. Orthologous to human DPPA3 (developmental pluripotency associated 3); INTERACTS WITH acrylamide; bisphenol A; furan.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: developmental pluripotency-associated protein 3; LOC297576
RGD Orthologs
Human
Mouse
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Dppa3-ps1   Dppa3-ps2   Dppa3l1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84157,523,426 - 157,526,810 (+)NCBIGRCr8
mRatBN7.24155,851,461 - 155,854,845 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4155,815,296 - 155,854,861 (+)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl588,097,665 - 88,098,141 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4162,115,960 - 162,119,338 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04157,899,173 - 157,902,551 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04156,544,266 - 156,547,644 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04155,437,675 - 155,441,059 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04222,459,195 - 222,464,881 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44159,083,360 - 159,086,744 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14159,328,295 - 159,331,696 (+)NCBI
Celera4144,670,614 - 144,673,998 (+)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromatin  (ISO)
cytoplasm  (ISO,ISS)
female pronucleus  (ISO,ISS)
male pronucleus  (ISO,ISS)
nucleus  (IBA,ISO,ISS)

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11900980   PMID:14654002   PMID:15018652   PMID:17143267   PMID:21407207   PMID:21421998   PMID:22722204  


Genomics

Comparative Map Data
Dppa3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84157,523,426 - 157,526,810 (+)NCBIGRCr8
mRatBN7.24155,851,461 - 155,854,845 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4155,815,296 - 155,854,861 (+)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl588,097,665 - 88,098,141 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4162,115,960 - 162,119,338 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04157,899,173 - 157,902,551 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04156,544,266 - 156,547,644 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04155,437,675 - 155,441,059 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04222,459,195 - 222,464,881 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44159,083,360 - 159,086,744 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14159,328,295 - 159,331,696 (+)NCBI
Celera4144,670,614 - 144,673,998 (+)NCBICelera
Cytogenetic Map4q42NCBI
DPPA3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38127,711,433 - 7,717,559 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl127,711,433 - 7,717,559 (+)EnsemblGRCh38hg38GRCh38
GRCh37127,864,029 - 7,870,155 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36127,755,356 - 7,761,422 (+)NCBINCBI36Build 36hg18NCBI36
Build 34127,755,355 - 7,761,417NCBI
Celera129,442,212 - 9,448,285 (+)NCBICelera
Cytogenetic Map12p13.31NCBI
HuRef127,678,041 - 7,684,114 (+)NCBIHuRef
CHM1_1127,862,915 - 7,869,510 (+)NCBICHM1_1
T2T-CHM13v2.0127,726,072 - 7,732,205 (+)NCBIT2T-CHM13v2.0
Dppa3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396122,603,383 - 122,607,230 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6122,603,369 - 122,607,231 (+)EnsemblGRCm39 Ensembl
GRCm386122,626,424 - 122,630,271 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6122,626,410 - 122,630,272 (+)EnsemblGRCm38mm10GRCm38
MGSCv376122,576,442 - 122,580,289 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366122,592,043 - 122,595,890 (+)NCBIMGSCv36mm8
Celera6124,426,164 - 124,430,002 (+)NCBICelera
Cytogenetic Map6F1NCBI
cM Map657.72NCBI
DPPA3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21013,269,015 - 13,275,786 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11213,265,774 - 13,272,545 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0127,834,298 - 7,841,064 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1127,994,606 - 8,000,731 (+)NCBIpanpan1.1PanPan1.1panPan2
DPPA3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12737,114,192 - 37,196,434 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha279,417,788 - 9,502,171 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02737,463,510 - 37,549,060 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12737,344,581 - 37,429,586 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02737,379,470 - 37,464,429 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0278,902,815 - 8,988,437 (-)NCBIUU_Cfam_GSD_1.0
DPPA3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1562,861,492 - 62,868,131 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2565,691,481 - 65,702,154 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DPPA3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1117,743,045 - 7,751,285 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666063450,101 - 455,796 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Dppa3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248604,974,941 - 4,978,295 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Dppa3
31 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:177
Count of miRNA genes:131
Interacting mature miRNAs:140
Transcripts:ENSRNOT00000031353, ENSRNOT00000043677
Prediction methods:Microtar, Miranda, Rnahybrid
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
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
6478760Anxrr45Anxiety related response QTL 450.06717locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
6478763Anxrr46Anxiety related response QTL 460.07428locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4114627026159627026Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4119428175157578333Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4124778595169778595Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
12798525Anxrr57Anxiety related response QTL 573.210.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4147278504167139601Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4148090542168069246Rat
61446Coreg2Compensatory renal growth QTL 23.5kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)4148423102157580971Rat
1581574Eae20Experimental allergic encephalomyelitis QTL 207.8nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)4153031106158841762Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4155561574182687754Rat


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 renal system reproductive system respiratory system appendage
High
Medium 1 1 11
Low 3 8 24 9 16 9 8 8 13 21 28 8 8
Below cutoff 2 28 18 18 2 18 1 42 14 6 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000031353   ⟹   ENSRNOP00000036033
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4155,815,296 - 155,854,861 (+)Ensembl
Rnor_6.0 Ensembl4155,437,675 - 155,440,828 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000043677   ⟹   ENSRNOP00000070027
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3111,298,713 - 111,299,189 (+)Ensembl
RefSeq Acc Id: NM_001047864   ⟹   NP_001041329
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84157,523,426 - 157,526,810 (+)NCBI
mRatBN7.24155,851,461 - 155,854,845 (+)NCBI
Rnor_6.04155,437,675 - 155,441,059 (+)NCBI
Rnor_5.04222,459,195 - 222,464,881 (+)NCBI
RGSC_v3.44159,083,360 - 159,086,744 (+)RGD
Celera4144,670,614 - 144,673,998 (+)RGD
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001041329   ⟸   NM_001047864
- UniProtKB: Q6IMK0 (UniProtKB/Swiss-Prot),   A6ILF5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000036033   ⟸   ENSRNOT00000031353
RefSeq Acc Id: ENSRNOP00000070027   ⟸   ENSRNOT00000043677

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6IMK0-F1-model_v2 AlphaFold Q6IMK0 1-158 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310932 AgrOrtholog
BioCyc Gene G2FUF-43148 BioCyc
Ensembl Genes ENSRNOG00000022950 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00000031161 Ensembl
  ENSRNOG00000031344 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00055003667 UniProtKB/Swiss-Prot
  ENSRNOG00055011569 UniProtKB/Swiss-Prot
  ENSRNOG00060025081 UniProtKB/Swiss-Prot
  ENSRNOG00060029883 UniProtKB/Swiss-Prot
  ENSRNOG00065028171 UniProtKB/Swiss-Prot
  ENSRNOG00065033144 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000031353 ENTREZGENE
  ENSRNOT00000031353.6 UniProtKB/Swiss-Prot
  ENSRNOT00000049192.4 UniProtKB/Swiss-Prot
  ENSRNOT00055005755 UniProtKB/Swiss-Prot
  ENSRNOT00055019653 UniProtKB/Swiss-Prot
  ENSRNOT00060043389 UniProtKB/Swiss-Prot
  ENSRNOT00060051890 UniProtKB/Swiss-Prot
  ENSRNOT00065048527 UniProtKB/Swiss-Prot
  ENSRNOT00065057017 UniProtKB/Swiss-Prot
InterPro Dppa3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:297576 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 297576 ENTREZGENE
PANTHER DEVELOPMENTAL PLURIPOTENCY-ASSOCIATED PROTEIN 3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DEVELOPMENTAL PLURIPOTENCY-ASSOCIATED PROTEIN 3-RELATED UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
Pfam PGC7_Stella UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Dppa3 PhenoGen
RatGTEx ENSRNOG00000022950 RatGTEx
  ENSRNOG00000031161 RatGTEx
  ENSRNOG00000031344 RatGTEx
  ENSRNOG00055003667 RatGTEx
  ENSRNOG00055011569 RatGTEx
  ENSRNOG00060025081 RatGTEx
  ENSRNOG00060029883 RatGTEx
  ENSRNOG00065028171 RatGTEx
  ENSRNOG00065033144 RatGTEx
UniProt A6ILF5 ENTREZGENE, UniProtKB/TrEMBL
  DPPA3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Dppa3  developmental pluripotency-associated 3  Dppa3_predicted  developmental pluripotency-associated 3 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Dppa3_predicted  developmental pluripotency-associated 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED