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Aliases for PRIM1 Gene

Aliases for PRIM1 Gene

  • Primase (DNA) Subunit 1 2 3 5
  • Primase, DNA, Polypeptide 1 (49kDa) 2 3
  • DNA Primase 49 KDa Subunit 3 4
  • P49 3 4
  • Primase Polypeptide 1, 49kDa 3
  • DNA Primase Small Subunit 3
  • DNA Primase Subunit 48 3
  • Primase P49 Subunit 3
  • DNA Primase 1 3
  • EC 2.7.7.- 4
  • EC 2.7.7 61

External Ids for PRIM1 Gene

Previous GeneCards Identifiers for PRIM1 Gene

  • GC12M057097
  • GC12M057351
  • GC12M056842
  • GC12M055411
  • GC12M054164
  • GC12M057125

Summaries for PRIM1 Gene

Entrez Gene Summary for PRIM1 Gene

  • The replication of DNA in eukaryotic cells is carried out by a complex chromosomal replication apparatus, in which DNA polymerase alpha and primase are two key enzymatic components. Primase, which is a heterodimer of a small subunit and a large subunit, synthesizes small RNA primers for the Okazaki fragments made during discontinuous DNA replication. The protein encoded by this gene is the small, 49 kDa primase subunit. [provided by RefSeq, Jul 2008]

GeneCards Summary for PRIM1 Gene

PRIM1 (Primase (DNA) Subunit 1) is a Protein Coding gene. Among its related pathways are Regulation of activated PAK-2p34 by proteasome mediated degradation and Mitotic G1-G1/S phases. GO annotations related to this gene include DNA primase activity.

UniProtKB/Swiss-Prot for PRIM1 Gene

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

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PRIM1 Gene

Genomics for PRIM1 Gene

Regulatory Elements for PRIM1 Gene

Enhancers for PRIM1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12F056220 1.2 ENCODE 22 +529.5 529492 5.7 CREB3L1 MLX ZFP64 YBX1 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 NEMP1 ANKRD52 BAZ2A PHC1P1 ZBTB39 TMEM198B SMARCC2 RN7SL809P ENSG00000258317 STAT2
GH12F056266 1.1 ENCODE 22 +485.2 485180 2.0 PKNOX1 CREB3L1 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF302 NEMP1 ANKRD52 BAZ2A PHC1P1 ZBTB39 SMARCC2 RN7SL809P ENSG00000258317 CDK2 TMEM198B
GH12F056187 1.2 ENCODE 18.9 +562.9 562917 3.5 HDGF ARNT MLX WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 CBX5 BAZ2A NEMP1 ZC3H10 RN7SL809P ENSG00000258317 CDK2 RNU6-343P ANKRD52 ZBTB39 PA2G4
GH12F055826 1 FANTOM5 22 +926.2 926195 0.2 ZNF493 ZFP64 INSM2 ZEB1 ZNF366 ZNF354C KLF7 ZNF202 ZNF680 ZNF654 ANKRD52 BAZ2A PHC1P1 TMEM198B SMARCC2 RN7SL809P ENSG00000258317 STAT2 ZC3H10 ENSG00000257740
GH12F056718 1.2 ENCODE 15 +29.8 29815 8.9 CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF416 ZNF548 ZNF263 MCM3 NEMP1 BAZ2A ANKRD52 RN7SL809P ENSG00000224713 TMEM198B ZC3H10 RNU6-343P CDK2 SMARCC2
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PRIM1 on UCSC Golden Path with GeneCards custom track

Promoters for PRIM1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000431304 573 2000 CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF143 SP3 MXD4

Genomic Location for PRIM1 Gene

Chromosome:
12
Start:
56,731,580 bp from pter
End:
56,752,373 bp from pter
Size:
20,794 bases
Orientation:
Minus strand

Genomic View for PRIM1 Gene

Genes around PRIM1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PRIM1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PRIM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PRIM1 Gene

Proteins for PRIM1 Gene

  • Protein details for PRIM1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P49642-PRI1_HUMAN
    Recommended name:
    DNA primase small subunit
    Protein Accession:
    P49642

    Protein attributes for PRIM1 Gene

    Size:
    420 amino acids
    Molecular mass:
    49902 Da
    Quaternary structure:
    • Heterodimer of a small subunit and a large subunit.
    Miscellaneous:
    • The bound zinc ion is not a cofactor. It is bound to a zinc knuckle motif that may be involved in sequence recognition and the binding of ssDNA (By similarity).

    Three dimensional structures from OCA and Proteopedia for PRIM1 Gene

neXtProt entry for PRIM1 Gene

Selected DME Specific Peptides for PRIM1 Gene

P49642:
  • NHLLKSPF
  • ELVFDID
  • LWVYSGRRG

Post-translational modifications for PRIM1 Gene

  • Ubiquitination at Lys 95, Lys 130, Lys 147, Lys 153, Lys 193, Lys 207, Lys 261, and Lys 377
  • Modification sites at PhosphoSitePlus

Other Protein References for PRIM1 Gene

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for PRIM1 (PRIM1)
  • Santa Cruz Biotechnology (SCBT) Antibodies for PRIM1

Domains & Families for PRIM1 Gene

Protein Domains for PRIM1 Gene

Suggested Antigen Peptide Sequences for PRIM1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P49642

UniProtKB/Swiss-Prot:

PRI1_HUMAN :
  • Belongs to the eukaryotic-type primase small subunit family.
Family:
  • Belongs to the eukaryotic-type primase small subunit family.
genes like me logo Genes that share domains with PRIM1: view

No data available for Gene Families for PRIM1 Gene

Function for PRIM1 Gene

Molecular function for PRIM1 Gene

GENATLAS Biochemistry:
DNA primase 1,49kDa,replication protein catalyzing the synthesis of Okazaki fragments,smallest subunit of the pol alpha (POLA)/primare complex,amplified in osteosarcoma with CDK4,OS9 and SAS
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 PRIM1 Gene

Gene Ontology (GO) - Molecular Function for PRIM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003697 single-stranded DNA binding IBA --
GO:0003896 DNA primase activity IEA --
GO:0003899 DNA-directed RNA polymerase activity IEA --
GO:0016740 transferase activity IEA --
GO:0016779 nucleotidyltransferase activity IEA --
genes like me logo Genes that share ontologies with PRIM1: view
genes like me logo Genes that share phenotypes with PRIM1: view

Animal Model Products

  • Taconic Biosciences Mouse Models for PRIM1

miRNA for PRIM1 Gene

miRTarBase miRNAs that target PRIM1

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PRIM1 Gene

Localization for PRIM1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PRIM1 gene
Compartment Confidence
nucleus 5
peroxisome 2
cytosol 2

Gene Ontology (GO) - Cellular Components for PRIM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
GO:0005658 alpha DNA polymerase:primase complex IBA --
GO:0016020 membrane IDA 19946888
genes like me logo Genes that share ontologies with PRIM1: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for PRIM1 Gene

Pathways & Interactions for PRIM1 Gene

genes like me logo Genes that share pathways with PRIM1: view

Gene Ontology (GO) - Biological Process for PRIM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000082 G1/S transition of mitotic cell cycle TAS --
GO:0000722 telomere maintenance via recombination TAS --
GO:0006260 DNA replication IEA --
GO:0006269 DNA replication, synthesis of RNA primer IEA --
GO:0006270 DNA replication initiation TAS --
genes like me logo Genes that share ontologies with PRIM1: view

No data available for SIGNOR curated interactions for PRIM1 Gene

Drugs & Compounds for PRIM1 Gene

(4) Drugs for PRIM1 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
Fludarabine Phosphate (Fludara) Pharma Inhibits STAT1 activation and DNA synthesis 0

(2) Additional Compounds for PRIM1 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
pyrophosphate
  • (4-)Diphosphoric acid ion
  • (P2O74-)Diphosphate
  • Diphosphate
  • Diphosphoric acid
  • PPi
14000-31-8
Thymidine 5'-triphosphate
  • 2'-Deoxythymidine 5'-triphosphate
  • 2'-Deoxythymidine triphosphate
  • 5'-TTP
  • 5-Methyl-dUTP
  • Deoxy-TTP
365-08-2

(1) ApexBio Compounds for PRIM1 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 PRIM1: view

Transcripts for PRIM1 Gene

Unigene Clusters for PRIM1 Gene

Primase, DNA, polypeptide 1 (49kDa):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PRIM1 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14
SP1: - - -
SP2: - -
SP3: - -
SP4: - - - - -
SP5:

Relevant External Links for PRIM1 Gene

GeneLoc Exon Structure for
PRIM1
ECgene alternative splicing isoforms for
PRIM1

Expression for PRIM1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PRIM1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for PRIM1 Gene

This gene is overexpressed in Fetal ovary (26.0), Testis (13.6), Fetal Liver (11.4), Fetal gut (7.9), and Lymph node (6.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for PRIM1 Gene



NURSA nuclear receptor signaling pathways regulating expression of PRIM1 Gene:

PRIM1

SOURCE GeneReport for Unigene cluster for PRIM1 Gene:

Hs.534339
genes like me logo Genes that share expression patterns with PRIM1: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for PRIM1 Gene

Orthologs for PRIM1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for PRIM1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PRIM1 34 35
  • 99.84 (n)
dog
(Canis familiaris)
Mammalia PRIM1 34 35
  • 91.79 (n)
cow
(Bos Taurus)
Mammalia PRIM1 34 35
  • 91.23 (n)
mouse
(Mus musculus)
Mammalia Prim1 34 16 35
  • 87.05 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PRIM1 35
  • 58 (a)
OneToOne
chicken
(Gallus gallus)
Aves PRIM1 34
  • 59.06 (n)
lizard
(Anolis carolinensis)
Reptilia PRIM1 35
  • 71 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia prim1 34
  • 69.14 (n)
Str.2884 34
African clawed frog
(Xenopus laevis)
Amphibia dnapol-alpha50-prov 34
zebrafish
(Danio rerio)
Actinopterygii prim1 34 35
  • 66.1 (n)
wufa12c04 34
fruit fly
(Drosophila melanogaster)
Insecta DNApol-alpha50 36 34 35
  • 51.58 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006065 34
  • 51.26 (n)
worm
(Caenorhabditis elegans)
Secernentea T24C4.5 36 34 35
  • 47.94 (n)
pri-1 36 35
  • 38 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0B11682g 34
  • 47.4 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AAR018W 34
  • 47.24 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PRI1 34 35 37
  • 47.17 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons POLA3 34
  • 52.56 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7258 35
  • 50 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes spp1 34
  • 48.84 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU02232 34
  • 48.32 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.9952 34
Species where no ortholog for PRIM1 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • 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 PRIM1 Gene

ENSEMBL:
Gene Tree for PRIM1 (if available)
TreeFam:
Gene Tree for PRIM1 (if available)

Paralogs for PRIM1 Gene

Pseudogenes.org Pseudogenes for PRIM1 Gene

genes like me logo Genes that share paralogs with PRIM1: view

No data available for Paralogs for PRIM1 Gene

Variants for PRIM1 Gene

Sequence variations from dbSNP and Humsavar for PRIM1 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1026565 -- 56,744,044(-) CTCCA(A/T)GCACT intron-variant
rs1051117 -- 56,751,154(-) TCACA(C/T)TGAAA upstream-variant-2KB, reference, synonymous-codon
rs10628775 -- 56,734,778(+) tatat(A/T)tatat intron-variant
rs10714181 -- 56,733,174(+) TTTTT(-/T)GAGAC intron-variant
rs10783796 -- 56,733,387(+) ctcct(C/G)acctc intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PRIM1 Gene

Variant ID Type Subtype PubMed ID
nsv482992 CNV gain+loss 15286789

Variation tolerance for PRIM1 Gene

Residual Variation Intolerance Score: 80.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.23; 81.09% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PRIM1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PRIM1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PRIM1 Gene

Disorders for PRIM1 Gene

Relevant External Links for PRIM1

Genetic Association Database (GAD)
PRIM1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PRIM1

No disorders were found for PRIM1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PRIM1 Gene

Publications for PRIM1 Gene

  1. Mapping of the human DNA primase 1 (PRIM1) to chromosome 12q13. (PMID: 9268648) Cloutier S. … Yotov W.V. (Genomics 1997) 3 4 22 64
  2. 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 22 64
  3. Meta-analyses identify 13 loci associated with age at menopause and highlight DNA repair and immune pathways. (PMID: 22267201) Stolk L. … Lunetta K.L. (Nat. Genet. 2012) 3 46 64
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  5. Amplifications of DNA primase 1 (PRIM1) in human osteosarcoma. (PMID: 10441007) Yotov W.V. … Levy E. (Genes Chromosomes Cancer 1999) 3 22 64

Products for PRIM1 Gene

Sources for PRIM1 Gene

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