Pnma5 (PNMA family member 5) - 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 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   new 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
Gene: Pnma5 (PNMA family member 5) Rattus norvegicus
Analyze
Symbol: Pnma5
Name: PNMA family member 5
RGD ID: 1565857
Description: Predicted to enable identical protein binding activity. Predicted to be involved in meiosis I. Predicted to be active in cell cortex and meiotic spindle. Orthologous to human PNMA5 (PNMA family member 5); INTERACTS WITH bisphenol A; C60 fullerene; aflatoxin B1 (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC309266; paraneoplastic antigen like 5; paraneoplastic antigen-like protein 5; paraneoplastic Ma antigen family member 5; RGD1565857; similar to paraneoplastic antigen like 5
RGD Orthologs
Human
Mouse
Bonobo
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X155,923,131 - 155,925,055 (-)NCBIGRCr8
mRatBN7.2X150,880,865 - 150,882,789 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX150,880,865 - 150,882,789 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX153,072,910 - 153,074,834 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X156,605,250 - 156,607,174 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X154,148,364 - 154,150,288 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X153,037,448 - 153,039,372 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX153,037,448 - 153,039,372 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01148,767,026 - 148,768,950 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X159,030,480 - 159,032,404 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1131,845,146 - 131,847,070 (-)NCBICelera
Cytogenetic MapXq37NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
meiosis I  (ISO)

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:25416956  


Genomics

Comparative Map Data
Pnma5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X155,923,131 - 155,925,055 (-)NCBIGRCr8
mRatBN7.2X150,880,865 - 150,882,789 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX150,880,865 - 150,882,789 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX153,072,910 - 153,074,834 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X156,605,250 - 156,607,174 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X154,148,364 - 154,150,288 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X153,037,448 - 153,039,372 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX153,037,448 - 153,039,372 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01148,767,026 - 148,768,950 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X159,030,480 - 159,032,404 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1131,845,146 - 131,847,070 (-)NCBICelera
Cytogenetic MapXq37NCBI
PNMA5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X152,988,824 - 152,994,116 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX152,988,824 - 152,994,116 (-)EnsemblGRCh38hg38GRCh38
GRCh37X152,157,368 - 152,162,660 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X151,908,024 - 151,911,417 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X151,827,938 - 151,831,326NCBI
CeleraX152,491,524 - 152,496,827 (-)NCBICelera
Cytogenetic MapXq28NCBI
HuRefX140,957,736 - 140,961,176 (-)NCBIHuRef
CHM1_1X152,032,328 - 152,037,631 (-)NCBICHM1_1
T2T-CHM13v2.0X151,255,263 - 151,260,555 (-)NCBIT2T-CHM13v2.0
Pnma5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X72,077,587 - 72,083,315 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX72,077,587 - 72,080,709 (-)EnsemblGRCm39 Ensembl
GRCm38X73,033,981 - 73,039,721 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX73,033,981 - 73,037,103 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X70,279,327 - 70,282,442 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X70,279,322 - 70,282,442 (-)NCBIMGSCv36mm8
CeleraX63,958,163 - 63,961,281 (-)NCBICelera
Cytogenetic MapXA7.3NCBI
cM MapX37.29NCBI
PNMA5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X153,053,179 - 153,059,368 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X153,056,782 - 153,062,686 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X142,564,200 - 142,566,785 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X152,483,324 - 152,487,740 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX152,483,930 - 152,485,276 (-)Ensemblpanpan1.1panPan2
Pnma5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X118,097,358 - 118,101,500 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936714155,618 - 157,563 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936714155,618 - 156,955 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PNMA5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX123,999,037 - 124,000,974 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X123,998,935 - 124,001,201 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PNMA5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X127,511,081 - 127,517,052 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX127,512,502 - 127,513,848 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606565,334,322 - 65,337,737 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:55
Count of miRNA genes:52
Interacting mature miRNAs:55
Transcripts:ENSRNOT00000037851
Prediction methods: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
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X126975089152453651Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat

Markers in Region
RH143166  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X150,881,755 - 150,881,971 (+)MAPPERmRatBN7.2
Rnor_6.0X153,038,339 - 153,038,554NCBIRnor6.0
Rnor_5.01148,767,917 - 148,768,132UniSTSRnor5.0
RGSC_v3.4X159,031,371 - 159,031,586UniSTSRGSC3.4
Celera1131,846,037 - 131,846,252UniSTS
Cytogenetic MapXq37UniSTS
RH139174  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X150,881,785 - 150,881,969 (+)MAPPERmRatBN7.2
Rnor_6.0X153,038,369 - 153,038,552NCBIRnor6.0
Rnor_5.01148,767,947 - 148,768,130UniSTSRnor5.0
RGSC_v3.4X159,031,401 - 159,031,584UniSTSRGSC3.4
Celera1131,846,067 - 131,846,250UniSTS
Cytogenetic MapXq37UniSTS
UniSTS:496785  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X150,880,736 - 150,880,962 (+)MAPPERmRatBN7.2
mRatBN7.2X150,908,926 - 150,909,152 (-)MAPPERmRatBN7.2
mRatBN7.2X150,880,736 - 150,880,962 (-)MAPPERmRatBN7.2
mRatBN7.2X150,908,926 - 150,909,152 (+)MAPPERmRatBN7.2
Rnor_6.0X153,037,320 - 153,037,545NCBIRnor6.0
Rnor_6.0X153,066,466 - 153,066,691NCBIRnor6.0
Rnor_5.01148,795,491 - 148,795,716UniSTSRnor5.0
Rnor_5.01148,766,898 - 148,767,123UniSTSRnor5.0
RGSC_v3.4X159,060,178 - 159,060,403UniSTSRGSC3.4
RGSC_v3.4X159,030,352 - 159,030,577UniSTSRGSC3.4
Celera1131,845,018 - 131,845,243UniSTS
Celera1131,872,931 - 131,873,156UniSTS
Cytogenetic MapXq37UniSTS


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 endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3
Low 17
Below cutoff 1 2 1 2 1 1 1 6 7 8 4 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000085250   ⟹   ENSRNOP00000074335
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX150,880,865 - 150,882,789 (-)Ensembl
Rnor_6.0 EnsemblX153,037,448 - 153,039,372 (-)Ensembl
RefSeq Acc Id: NM_001107579   ⟹   NP_001101049
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X155,923,131 - 155,925,055 (-)NCBI
mRatBN7.2X150,880,865 - 150,882,789 (-)NCBI
Rnor_6.0X153,037,448 - 153,039,372 (-)NCBI
Rnor_5.01148,767,026 - 148,768,950 (-)NCBI
RGSC_v3.4X159,030,480 - 159,032,404 (-)RGD
Celera1131,845,146 - 131,847,070 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001101049 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL82842 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000074335
  ENSRNOP00000074335.1
Reference Protein Sequences
RefSeq Acc Id: NP_001101049   ⟸   NM_001107579
- UniProtKB: D4AEL1 (UniProtKB/TrEMBL),   A6KSY9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074335   ⟸   ENSRNOT00000085250
Protein Domains
Paraneoplastic antigen Ma-like C-terminal   Paraneoplastic antigen Ma-like N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AEL1-F1-model_v2 AlphaFold D4AEL1 1-436 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:1565857 AgrOrtholog
BioCyc Gene G2FUF-690 BioCyc
Ensembl Genes ENSRNOG00000058423 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000085250 ENTREZGENE
  ENSRNOT00000085250.2 UniProtKB/TrEMBL
InterPro PNMA UniProtKB/TrEMBL
  PNMA_C UniProtKB/TrEMBL
  PNMA_N UniProtKB/TrEMBL
KEGG Report rno:309266 UniProtKB/TrEMBL
NCBI Gene 309266 ENTREZGENE
PANTHER PTHR23095 UniProtKB/TrEMBL
  PTHR23095:SF4 UniProtKB/TrEMBL
Pfam PNMA UniProtKB/TrEMBL
  PNMA_N UniProtKB/TrEMBL
PhenoGen Pnma5 PhenoGen
RatGTEx ENSRNOG00000058423 RatGTEx
UniProt A6KSY9 ENTREZGENE, UniProtKB/TrEMBL
  D4AEL1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-09-28 Pnma5  PNMA family member 5  Pnma5  paraneoplastic Ma antigen family member 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-10 Pnma5  paraneoplastic Ma antigen family member 5  Pnma5  paraneoplastic antigen like 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-01-23 Pnma5  paraneoplastic antigen like 5  RGD1565857  similar to paraneoplastic antigen like 5   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1565857  similar to paraneoplastic antigen like 5   RGD1565857_predicted  similar to paraneoplastic antigen like 5 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1565857_predicted  similar to paraneoplastic antigen like 5 (predicted)  LOC309266  similar to paraneoplastic antigen like 5  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC309266  similar to paraneoplastic antigen like 5      Symbol and Name status set to provisional 70820 PROVISIONAL