Human Gene PNMA2 (ENST00000522362.7) from GENCODE V44
  Description: Homo sapiens PNMA family member 2 (PNMA2), mRNA. (from RefSeq NM_007257)
Gencode Transcript: ENST00000522362.7
Gencode Gene: ENSG00000240694.9
Transcript (Including UTRs)
   Position: hg38 chr8:26,504,701-26,513,872 Size: 9,172 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg38 chr8:26,507,661-26,508,755 Size: 1,095 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:26,504,701-26,513,872)mRNA (may differ from genome)Protein (364 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCLynxMalacardsMGIneXtProtOMIM
PubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PNMA2_HUMAN
DESCRIPTION: RecName: Full=Paraneoplastic antigen Ma2; AltName: Full=40 kDa neuronal protein; AltName: Full=Onconeuronal antigen Ma2; AltName: Full=Paraneoplastic neuronal antigen MM2;
INTERACTION: P16333:NCK1; NbExp=2; IntAct=EBI-302355, EBI-389883;
SUBCELLULAR LOCATION: Nucleus, nucleolus.
TISSUE SPECIFICITY: Brain specific. In some patients suffering from cancers, it is also specifically expressed by the testicular tumor cells.
MISCELLANEOUS: Antibodies against PNMA2 are present in sera from patients suffering of paraneoplastic neurological disorders.
SIMILARITY: Belongs to the PNMA family.
SEQUENCE CAUTION: Sequence=BAA74906.2; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: PNMA2
Diseases sorted by gene-association score: limbic encephalitis (2), oculomotor nerve paralysis (2), third cranial nerve disease (2), agraphia (2), lateral medullary syndrome (1), peliosis hepatis (1), branch retinal artery occlusion (1), testis seminoma (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 5.72 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 38.85 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -242.60675-0.359 Picture PostScript Text
3' UTR -797.402960-0.269 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR026523 - PNMA
IPR026525 - PNMA2
IPR005162 - Retrotrans_gag

Pfam Domains:
PF03732 - Retrotransposon gag protein

ModBase Predicted Comparative 3D Structure on Q9UL42
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0043065 positive regulation of apoptotic process

Cellular Component:
GO:0005634 nucleus
GO:0005730 nucleolus


-  Descriptions from all associated GenBank mRNAs
  KJ893114 - Synthetic construct Homo sapiens clone ccsbBroadEn_02508 PNMA2 gene, encodes complete protein.
LF210130 - JP 2014500723-A/17633: Polycomb-Associated Non-Coding RNAs.
MA445707 - JP 2018138019-A/17633: Polycomb-Associated Non-Coding RNAs.
AB020690 - Homo sapiens KIAA0883 mRNA for KIAA0883 protein.
BC036489 - Homo sapiens paraneoplastic antigen MA2, mRNA (cDNA clone MGC:43166 IMAGE:5262276), complete cds.
LF334968 - JP 2014500723-A/142471: Polycomb-Associated Non-Coding RNAs.
MA570545 - JP 2018138019-A/142471: Polycomb-Associated Non-Coding RNAs.
JD115360 - Sequence 96384 from Patent EP1572962.
JD528557 - Sequence 509581 from Patent EP1572962.
JD051919 - Sequence 32943 from Patent EP1572962.
JD258635 - Sequence 239659 from Patent EP1572962.
JD268175 - Sequence 249199 from Patent EP1572962.
JD347617 - Sequence 328641 from Patent EP1572962.
JD226078 - Sequence 207102 from Patent EP1572962.
JD280977 - Sequence 262001 from Patent EP1572962.
JD323296 - Sequence 304320 from Patent EP1572962.
JD502100 - Sequence 483124 from Patent EP1572962.
JD510254 - Sequence 491278 from Patent EP1572962.
JD243902 - Sequence 224926 from Patent EP1572962.
JD184067 - Sequence 165091 from Patent EP1572962.
JD305286 - Sequence 286310 from Patent EP1572962.
JD254622 - Sequence 235646 from Patent EP1572962.
JD122204 - Sequence 103228 from Patent EP1572962.
JD494550 - Sequence 475574 from Patent EP1572962.
JD244548 - Sequence 225572 from Patent EP1572962.
BC047515 - Homo sapiens paraneoplastic antigen MA2, mRNA (cDNA clone MGC:51254 IMAGE:5294654), complete cds.
LF334967 - JP 2014500723-A/142470: Polycomb-Associated Non-Coding RNAs.
MA570544 - JP 2018138019-A/142470: Polycomb-Associated Non-Coding RNAs.
JD173963 - Sequence 154987 from Patent EP1572962.
JD355194 - Sequence 336218 from Patent EP1572962.
JD516248 - Sequence 497272 from Patent EP1572962.
JD210900 - Sequence 191924 from Patent EP1572962.
JD276854 - Sequence 257878 from Patent EP1572962.
JD236295 - Sequence 217319 from Patent EP1572962.
JD375558 - Sequence 356582 from Patent EP1572962.
JD500014 - Sequence 481038 from Patent EP1572962.
JD399604 - Sequence 380628 from Patent EP1572962.
JD499395 - Sequence 480419 from Patent EP1572962.
JD422209 - Sequence 403233 from Patent EP1572962.
JD556155 - Sequence 537179 from Patent EP1572962.
AF083115 - Homo sapiens paraneoplastic cancer-testis-brain antigen (MA4) mRNA, partial cds.
BC062301 - Homo sapiens paraneoplastic antigen MA2, mRNA (cDNA clone MGC:71104 IMAGE:6580976), complete cds.
AK055325 - Homo sapiens cDNA FLJ30763 fis, clone FEBRA2000581, highly similar to Paraneoplastic antigen Ma2.
JD379841 - Sequence 360865 from Patent EP1572962.
JD272883 - Sequence 253907 from Patent EP1572962.
JD271500 - Sequence 252524 from Patent EP1572962.
JD273294 - Sequence 254318 from Patent EP1572962.
JD294868 - Sequence 275892 from Patent EP1572962.
JD320382 - Sequence 301406 from Patent EP1572962.
JD203746 - Sequence 184770 from Patent EP1572962.
AF286487 - Homo sapiens paraneoplastic associated brain-testis-cancer antigen mRNA, complete cds.
JD285431 - Sequence 266455 from Patent EP1572962.
JD505165 - Sequence 486189 from Patent EP1572962.
JD322886 - Sequence 303910 from Patent EP1572962.
JD505164 - Sequence 486188 from Patent EP1572962.
JD058784 - Sequence 39808 from Patent EP1572962.
JD071951 - Sequence 52975 from Patent EP1572962.
JD505163 - Sequence 486187 from Patent EP1572962.
JD397202 - Sequence 378226 from Patent EP1572962.
JD069845 - Sequence 50869 from Patent EP1572962.
JD069846 - Sequence 50870 from Patent EP1572962.
JD463534 - Sequence 444558 from Patent EP1572962.
JD554623 - Sequence 535647 from Patent EP1572962.
JD430805 - Sequence 411829 from Patent EP1572962.
JD213367 - Sequence 194391 from Patent EP1572962.
JD256850 - Sequence 237874 from Patent EP1572962.
JD248965 - Sequence 229989 from Patent EP1572962.
JD325582 - Sequence 306606 from Patent EP1572962.
JD526022 - Sequence 507046 from Patent EP1572962.
JD290313 - Sequence 271337 from Patent EP1572962.
JD402718 - Sequence 383742 from Patent EP1572962.
AF083114 - Homo sapiens paraneoplastic cancer-testis-brain antigen (MA3) mRNA, partial cds.
JD555014 - Sequence 536038 from Patent EP1572962.
JD402540 - Sequence 383564 from Patent EP1572962.
JD521556 - Sequence 502580 from Patent EP1572962.
JD189014 - Sequence 170038 from Patent EP1572962.
JD434867 - Sequence 415891 from Patent EP1572962.
JD173313 - Sequence 154337 from Patent EP1572962.
HQ447669 - Synthetic construct Homo sapiens clone IMAGE:100071015; CCSB013726_01 paraneoplastic antigen MA2 (PNMA2) gene, encodes complete protein.
AB384031 - Synthetic construct DNA, clone: pF1KSDA0883, Homo sapiens PNMA2 gene for paraneoplastic antigen Ma2, complete cds, without stop codon, in Flexi system.
LF334966 - JP 2014500723-A/142469: Polycomb-Associated Non-Coding RNAs.
MA570543 - JP 2018138019-A/142469: Polycomb-Associated Non-Coding RNAs.
LF334965 - JP 2014500723-A/142468: Polycomb-Associated Non-Coding RNAs.
MA570542 - JP 2018138019-A/142468: Polycomb-Associated Non-Coding RNAs.
CU687524 - Synthetic construct Homo sapiens gateway clone IMAGE:100022408 5' read PNMA2 mRNA.
AF037365 - Homo sapiens paraneoplastic neuronal antigen MM2 (MM2) mRNA, partial cds.
JD338658 - Sequence 319682 from Patent EP1572962.
LF334964 - JP 2014500723-A/142467: Polycomb-Associated Non-Coding RNAs.
MA570541 - JP 2018138019-A/142467: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KNY9, ENST00000522362.1, ENST00000522362.2, ENST00000522362.3, ENST00000522362.4, ENST00000522362.5, ENST00000522362.6, KIAA0883, MA2, NM_007257, O94959, O95145, PNMA2_HUMAN, Q49A18, Q9UL42, Q9UL43, uc003xez.1, uc003xez.2, uc003xez.3, uc003xez.4
UCSC ID: ENST00000522362.7
RefSeq Accession: NM_007257
Protein: Q9UL42 (aka PNMA2_HUMAN or PMA2_HUMAN)
CCDS: CCDS34868.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.