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Aliases for PRIM2 Gene

Aliases for PRIM2 Gene

  • Primase (DNA) Subunit 2 2 3
  • Primase, DNA, Polypeptide 2 (58kDa) 2 3 5
  • DNA Primase 58 KDa Subunit 3 4
  • PRIM2A 3 4
  • P58 3 4
  • Primase, Polypeptide 2A (58kD) 2
  • Primase, Polypeptide 2A, 58kDa 2
  • EC 2.7.7.- 4
  • EC 2.7.7 63

External Ids for PRIM2 Gene

Previous HGNC Symbols for PRIM2 Gene

  • PRIM2A

Previous GeneCards Identifiers for PRIM2 Gene

  • GC06P057287
  • GC06P057179
  • GC06P057016

Summaries for PRIM2 Gene

Entrez Gene Summary for PRIM2 Gene

  • This gene encodes the 58 kilodalton subunit of DNA primase, an enzyme that plays a key role in the replication of DNA. The encoded protein forms a heterodimer with a 49 kilodalton subunit. This heterodimer functions as a DNA-directed RNA polymerase to synthesize small RNA primers that are used to create Okazaki fragments on the lagging strand of the DNA. Alternative splicing of this gene results in multiple transcript variants. This gene has a related pseudogene, which is also present on chromosome 6. [provided by RefSeq, Apr 2014]

GeneCards Summary for PRIM2 Gene

PRIM2 (Primase (DNA) Subunit 2) is a Protein Coding gene. Among its related pathways are CDK-mediated phosphorylation and removal of Cdc6 and Mitotic G1-G1/S phases. GO annotations related to this gene include 4 iron, 4 sulfur cluster binding and DNA primase activity.

UniProtKB/Swiss-Prot for PRIM2 Gene

  • DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki fragments made during discontinuous DNA replication.

Gene Wiki entry for PRIM2 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PRIM2 Gene

Genomics for PRIM2 Gene

Regulatory Elements for PRIM2 Gene

Enhancers for PRIM2 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around PRIM2 on UCSC Golden Path with GeneCards custom track

Genomic Location for PRIM2 Gene

57,314,805 bp from pter
57,646,850 bp from pter
332,046 bases
Plus strand

Genomic View for PRIM2 Gene

Genes around PRIM2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PRIM2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PRIM2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PRIM2 Gene

Proteins for PRIM2 Gene

  • Protein details for PRIM2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    DNA primase large subunit
    Protein Accession:
    Secondary Accessions:
    • Q53FJ8
    • Q6P1Q7
    • Q8WVL2
    • Q9H413

    Protein attributes for PRIM2 Gene

    509 amino acids
    Molecular mass:
    58806 Da
    Name=[4Fe-4S] cluster; Xref=ChEBI:CHEBI:49883;
    Quaternary structure:
    • Heterodimer of a small subunit and a large subunit.

    Three dimensional structures from OCA and Proteopedia for PRIM2 Gene

    Alternative splice isoforms for PRIM2 Gene


neXtProt entry for PRIM2 Gene

Proteomics data for PRIM2 Gene at MOPED

Selected DME Specific Peptides for PRIM2 Gene

Post-translational modifications for PRIM2 Gene

  • Ubiquitination at Lys 54, Lys 65, Lys 139, Lys 395, Lys 402, and Lys 416
  • Modification sites at PhosphoSitePlus

Other Protein References for PRIM2 Gene

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for PRIM2 (PRI2)

Domains & Families for PRIM2 Gene

Protein Domains for PRIM2 Gene

Suggested Antigen Peptide Sequences for PRIM2 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the eukaryotic-type primase large subunit family.
  • Belongs to the eukaryotic-type primase large subunit family.
genes like me logo Genes that share domains with PRIM2: view

No data available for Gene Families for PRIM2 Gene

Function for PRIM2 Gene

Molecular function for PRIM2 Gene

UniProtKB/Swiss-Prot Function:
DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki fragments made during discontinuous DNA replication.

Enzyme Numbers (IUBMB) for PRIM2 Gene

Gene Ontology (GO) - Molecular Function for PRIM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003896 DNA primase activity IEA --
GO:0016779 nucleotidyltransferase activity IEA --
genes like me logo Genes that share ontologies with PRIM2: view
genes like me logo Genes that share phenotypes with PRIM2: view

Animal Model Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PRIM2 Gene

Localization for PRIM2 Gene

Gene Ontology (GO) - Cellular Components for PRIM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with PRIM2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from COMPARTMENTS for PRIM2 Gene

Pathways & Interactions for PRIM2 Gene

genes like me logo Genes that share pathways with PRIM2: view

Interacting Proteins for PRIM2 Gene

Gene Ontology (GO) - Biological Process for PRIM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000278 mitotic cell cycle TAS --
GO:0000722 telomere maintenance via recombination TAS --
GO:0000723 telomere maintenance TAS --
GO:0006269 DNA replication, synthesis of RNA primer IEA --
GO:0006270 DNA replication initiation TAS --
genes like me logo Genes that share ontologies with PRIM2: view

No data available for SIGNOR curated interactions for PRIM2 Gene

Drugs & Compounds for PRIM2 Gene

(5) Drugs for PRIM2 Gene - From: ApexBio and HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
dctp Experimental Pharma 0
Deoxyadenosine triphosphate Experimental Pharma 0
dgtp Experimental Pharma 0
Diphosphate Experimental Pharma 0
Fludarabine Phosphate (Fludara) Pharma Inhibits STAT1 activation and DNA synthesis 0

(1) Additional Compounds for PRIM2 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Thymidine 5'-triphosphate
  • 2'-Deoxythymidine 5'-triphosphate
  • 2'-Deoxythymidine triphosphate
  • 5'-TTP
  • 5-Methyl-dUTP
  • Deoxy-TTP

(1) ApexBio Compounds for PRIM2 Gene

Compound Action Cas Number
Fludarabine Phosphate (Fludara) Inhibits STAT1 activation and DNA synthesis 75607-67-9
genes like me logo Genes that share compounds with PRIM2: view

Transcripts for PRIM2 Gene

Unigene Clusters for PRIM2 Gene

Primase, DNA, polypeptide 2 (58kDa):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for PRIM2 Gene

No ASD Table

Relevant External Links for PRIM2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PRIM2 Gene

mRNA expression in normal human tissues for PRIM2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for PRIM2 Gene

This gene is overexpressed in Cervix (28.6), CD8 Tcells (23.6), and CD4 Tcells (9.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MOPED, and MaxQB for PRIM2 Gene

SOURCE GeneReport for Unigene cluster for PRIM2 Gene Hs.654580

genes like me logo Genes that share expression patterns with PRIM2: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for PRIM2 Gene

Orthologs for PRIM2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for PRIM2 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia PRIM2 35
  • 87.32 (n)
  • 86.92 (a)
PRIM2 36
  • 59 (a)
(Canis familiaris)
Mammalia PRIM2 35
  • 90.93 (n)
  • 90.34 (a)
PRIM2 36
  • 59 (a)
(Mus musculus)
Mammalia Prim2 35
  • 84.36 (n)
  • 90.1 (a)
Prim2 16
Prim2 36
  • 61 (a)
(Rattus norvegicus)
Mammalia Prim2 35
  • 84.44 (n)
  • 88.64 (a)
(Monodelphis domestica)
Mammalia PRIM2 36
  • 54 (a)
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 22 (a)
-- 36
  • 8 (a)
-- 36
  • 69 (a)
-- 36
  • 60 (a)
(Gallus gallus)
Aves PRIM2 35
  • 69.43 (n)
  • 68.84 (a)
PRIM2 36
  • 46 (a)
(Anolis carolinensis)
Reptilia PRIM2 36
  • 41 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia prim2 35
  • 62.8 (n)
  • 62.23 (a)
Str.15796 35
African clawed frog
(Xenopus laevis)
Amphibia Xl.7459 35
(Danio rerio)
Actinopterygii anxa1c 35
zgc:110727 35
  • 67.16 (n)
  • 69.07 (a)
PRIM2 36
  • 44 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.2459 35
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006387 35
  • 47.12 (n)
  • 41.14 (a)
fruit fly
(Drosophila melanogaster)
Insecta DNApol-alpha60 35
  • 47 (n)
  • 39.91 (a)
DNApol-alpha60 36
  • 23 (a)
(Caenorhabditis elegans)
Secernentea pri-2 35
  • 49.15 (n)
  • 42.76 (a)
pri-2 36
  • 25 (a)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ABR056C 35
  • 41.25 (n)
  • 36.1 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F04818g 35
  • 46.67 (n)
  • 37.44 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PRI2 35
  • 47.05 (n)
  • 38.18 (a)
PRI2 36
  • 23 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G67320 35
  • 50.82 (n)
  • 44.76 (a)
(Oryza sativa)
Liliopsida Os.11383 35
Os07g0406800 35
  • 50.08 (n)
  • 44.79 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.9000 35
bread mold
(Neurospora crassa)
Ascomycetes NCU04646 35
  • 45.63 (n)
  • 40.14 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes spp2 35
  • 49.52 (n)
  • 40.87 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.4944 36
  • 31 (a)
Species with no ortholog for PRIM2:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • chimpanzee (Pan troglodytes)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for PRIM2 Gene

Gene Tree for PRIM2 (if available)
Gene Tree for PRIM2 (if available)

Paralogs for PRIM2 Gene

No data available for Paralogs for PRIM2 Gene

Variants for PRIM2 Gene

Sequence variations from dbSNP and Humsavar for PRIM2 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
VAR_051506 -
rs5011403 - 57,379,982(+) GGTTC(A/G)AGTCC reference, missense
rs6913546 - 57,382,086(+) GGAAG(A/G)TGGCT reference, missense
VAR_059744 -
VAR_059745 -

Structural Variations from Database of Genomic Variants (DGV) for PRIM2 Gene

Variant ID Type Subtype PubMed ID
dgv1956e1 CNV Complex 17122850
esv2453782 CNV Gain 19546169
esv273418 CNV Insertion 20981092
esv1002659 CNV Deletion 20482838
nsv470820 CNV Gain 18288195
nsv885914 CNV Gain 21882294
esv2732129 CNV Deletion 23290073
nsv528053 CNV Loss 19592680
nsv818418 CNV Gain 17921354
nsv885915 CNV Gain 21882294
esv22079 CNV Gain 19812545
esv273180 CNV Insertion 20981092
esv271627 CNV Insertion 20981092
esv2591679 CNV Deletion 19546169
esv1005755 CNV Deletion 20482838
esv2635100 CNV Deletion 19546169
dgv109n16 CNV Deletion 17901297
esv1930914 CNV Deletion 18987734
nsv511884 CNV Loss 21212237
esv2732130 CNV Deletion 23290073
esv6364 CNV Loss 19470904
esv988239 CNV Deletion 20482838
nsv435841 CNV Deletion 17901297
esv1007913 CNV Deletion 20482838
esv2579565 CNV Deletion 19546169
nsv511885 CNV Loss 21212237
dgv32e194 CNV Deletion 18987734
esv2732131 CNV Deletion 23290073
esv9696 CNV Loss 19470904
nsv436502 CNV Deletion 17901297
nsv515916 CNV Gain+Loss 19592680
esv2408738 CNV Deletion 18987734
esv2732132 CNV Deletion 23290073
nsv510916 CNV Complex 20534489
dgv6851n71 CNV Gain 21882294
nsv349821 CNV Loss 16902084
esv2732133 CNV Deletion 23290073
nsv510030 CNV Loss 20534489
dgv6852n71 CNV Gain 21882294
nsv885922 CNV Gain 21882294
nsv510031 CNV Loss 20534489
nsv885923 CNV Gain 21882294
esv2732134 CNV Deletion 23290073
dgv1054e201 CNV Deletion 23290073
esv2732135 CNV Deletion 23290073
nsv348886 CNV Loss 16902084
esv2732136 CNV Deletion 23290073
esv2732137 CNV Deletion 23290073
esv2732138 CNV Deletion 23290073
esv2661787 CNV Deletion 23128226
nsv885924 CNV Gain 21882294
dgv6853n71 CNV Gain 21882294
esv2732141 CNV Deletion 23290073
nsv5317 CNV Insertion 18451855
esv2210153 CNV Deletion 18987734
esv2732142 CNV Deletion 23290073
nsv349838 CNV Loss 16902084
esv5549 CNV Loss 19470904
nsv510900 CNV Complex 20534489
nsv510032 CNV Loss 20534489
esv996416 CNV Insertion 20482838
nsv511355 CNV Loss 21212237
dgv6854n71 CNV Loss 21882294
esv7406 CNV Gain 19470904
esv271614 CNV Insertion 20981092
esv273851 CNV Insertion 20981092
nsv510033 CNV Loss 20534489
esv992580 CNV Deletion 20482838
dgv110n16 CNV Deletion 17901297
nsv507331 CNV Insertion 20534489
esv2461595 CNV Deletion 19546169
esv2360931 CNV Deletion 18987734
nsv511886 CNV Loss 21212237
nsv348789 CNV Loss 16902084
esv2732143 CNV Deletion 23290073
esv6947 CNV Loss 19470904
nsv348976 CNV Loss 16902084
esv267945 CNV Insertion 20981092
esv273640 CNV Insertion 20981092
esv2732144 CNV Deletion 23290073
nsv511887 CNV Loss 21212237
esv2565104 CNV Deletion 19546169
esv2732145 CNV Deletion 23290073
dgv6855n71 CNV Gain 21882294
nsv5318 CNV Loss 18451855
esv7702 OTHER Inversion 19470904
esv273621 CNV Insertion 20981092
nsv511888 CNV Loss 21212237
esv2549118 CNV Deletion 19546169
esv1949021 CNV Deletion 18987734
esv8489 CNV Loss 19470904
esv2732146 CNV Deletion 23290073
esv2732147 CNV Deletion 23290073
dgv1055e201 CNV Deletion 23290073
esv2732152 CNV Deletion 23290073
esv2732153 CNV Deletion 23290073
esv1008673 CNV Deletion 20482838
esv2458880 CNV Deletion 19546169
esv1005437 CNV Insertion 20482838
dgv6856n71 CNV Gain 21882294
dgv6857n71 CNV Gain 21882294
esv271524 CNV Insertion 20981092
esv272664 CNV Insertion 20981092

Variation tolerance for PRIM2 Gene

Gene Damage Index Score: 1.50; 29.21% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for PRIM2 Gene

Disorders for PRIM2 Gene

Relevant External Links for PRIM2

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for PRIM2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PRIM2 Gene

Publications for PRIM2 Gene

  1. Assignment of the 49-kDa (PRIM1) and 58-kDa (PRIM2A and PRIM2B) subunit genes of the human DNA primase to chromosome bands 1q44 and 6p11.1-p12. (PMID: 8530050) Shiratori A. … Miyazawa H. (Genomics 1995) 2 3 23 67
  2. The genomic distribution and local context of coincident SNPs in human and chimpanzee. (PMID: 20675616) Hodgkinson A. … Eyre-Walker A. (Genome Biol Evol 2010) 2 3
  3. An iron-sulfur cluster in the C-terminal domain of the p58 subunit of human DNA primase. (PMID: 17893144) Weiner B.E. … Chazin W.J. (J. Biol. Chem. 2007) 3 23
  4. Control of complex formation of DNA polymerase alpha-primase and cell-free DNA replication by the C-terminal amino acids of the largest subunit p180. (PMID: 12220650) Smith R.W. … Nasheuer H.P. (FEBS Lett. 2002) 3 23
  5. Crystal structure of the human primase. (PMID: 25550159) Baranovskiy A.G. … Tahirov T.H. (J. Biol. Chem. 2015) 3

Products for PRIM2 Gene

Sources for PRIM2 Gene