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PRIM1 Gene

protein-coding   GIFtS: 63

GC12M055411
primase, DNA, polypeptide 1 (49kDa)
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
EC 2.7.7.- 3
MGC12308 2
p49 2, 3
Descriptions
DNA primase 1 2
DNA primase 49 kDa subunit 3
DNA primase polypeptide 1 2
DNA primase small subunit 2
DNA primase subunit 48 2
primase p49 subunit 2
primase polypeptide 1, 49kDa 2
primase, DNA, polypeptide 1 (49kDa) 2
External Ids
HGNC: 93691
Entrez Gene: 55572
UniProtKB: P496423
Ensembl: ENSG000001980567
Search outside databases for aliases for PRIM1 gene

Previous GC identifers: GC12M057097 GC12M057351 GC12M056842

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for PRIM1:
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]

UniProtKB/Swiss-Prot: PRI1_HUMAN, P49642
Function: DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki
fragments made during discontinuous DNA replication

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the PRIM1 gene  

Entrez Gene cytogenetic band: 12q13   Ensembl cytogenetic band:  12q13.3   HGNC cytogenetic band: 12q13.3

PRIM1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12M055411:     (about GC identifiers)

Start:
55,409,326 bp from pter
End:
55,432,413 bp from pter
Size:
23,088 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000012.10  NT_029419.11  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: PRI1_HUMAN, P49642 (See protein sequence)
Recommended Name: DNA primase small subunit  
Size: 420 amino acids; 49902 Da
Subunit: 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)

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_000937.1  

    ENSEMBL proteins: 
    ENSP00000350491 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse Abcam for Recombinant Proteins
    Human Recombinant Proteins from Abnova (PRIM1)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    2 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005654 nucleoplasm EXP6693436 9822671 11473323
    GO:0005658 alpha DNA polymerase:primase complex IEA--
    About this table

    Antibodies for PRIM1: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for PRIM1
    Browse R&D Systems for Antibodies
    Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
    Browse Abnova for Monoclonal and Polyclonal Antibodies
    Search Novus for antibodies for PRIM1

    Assays for PRIM1: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    2 InterPro domains/families:
     IPR014052 DNA_primase_S_euk_arch
     IPR002755 DNA_primase_S


       GeneDecks  PRIM1 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry P49642

    ProtoNet protein and cluster: P49642

    1 Blocks protein family: IPB002755 DNA primase

    UniProtKB/Swiss-Prot: PRI1_HUMAN, P49642
    Similarity: Belongs to the eukaryotic-type primase small subunit family

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (PRIM1)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (PRIM1)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_000946

                  Applied Biosystems Silencer® siRNAs for PRIM1

                  Sigma-Aldrich siRNA for PRIM1  
                         Sigma-Aldrich shRNA for PRIM1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for PRIM1
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_000946
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_000946
                                     untagged cDNA clone in CMV expression vector: NM_000946 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_000946

    UniProtKB/Swiss-Prot: PRI1_HUMAN, P49642
    Function: DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki
    fragments made during discontinuous DNA replication
    Enzyme Number (IUBMB): EC 2.7.7.- 

    Genatlas biochemistry entry for PRIM1:
    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

    5/6 Gene Ontology (GO) molecular function terms (links to tree view) (see all 6 ):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003896 DNA primase activity TAS8026492
    GO:0005515 protein binding IEA--
    GO:0008270 zinc ion binding IEA--
    GO:0016740 transferase activity IEA--
    GO:0016779 nucleotidyltransferase activity IEA--
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section


    3 Millipore Pathways for PRIM1
     Cell cycle Transition and termination of DNA replacation
     Cell cycle Start of DNA replication in early S phase
     Transcription Ligand-dependent activation of the ESR1/SP pathway

       GeneDecks  PRIM1 for the pathways selected above  
    About GeneDecksing

    2 Sigma-Aldrich "Your Favorite Gene" Pathways for  PRIM1  (Your Favorite Gene powered by Ingenuity) 
     Pyrimidine Metabolism
     Purine Metabolism

       GeneDecks  PRIM1 for the pathways selected above  
    About GeneDecksing

    3 Kegg Pathways  (Kegg details for PRIM1):
     hsa00230 Purine metabolism
     hsa00240 Pyrimidine metabolism
     hsa03030 DNA replication

       GeneDecks  PRIM1 for the pathways selected above  
    About GeneDecksing

    5/65 Interacting proteins for PRIM1 (P496422 ENSP000003504913) via UniProtKB, MINT, and/or STRING (see all 65 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    MRPL38Q96DV42MINT-65127
    POLA1ENSP000003683583STRING (score=.998)
    POLA2ENSP000002654653STRING (score=.998)
    PRIM2ENSP000003741393STRING (score=.998)
    POLD3ENSP000002636813STRING (score=.991)
    About this table

    3 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006260 DNA replication IEA--
    GO:0006269 DNA replication, synthesis of RNA primer TAS8026492
    GO:0006350 transcription IEA--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for PRIM1

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (PRIM1)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (PRIM1)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_000946

                  Sigma-Aldrich siRNA for PRIM1  
                         Sigma-Aldrich shRNA for PRIM1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_000946  

    REFSEQ mRNAs for PRIM1 gene: 

    NM_000946.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_000946  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_000946
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_000946
                                     untagged cDNA clone in CMV expression vector: NM_000946 

    Additional cDNA sequence: 

    AK223391.1 AK314866.1 BC005266.1 CR612911.1 CR620245.1 CR621514.1 X74330.1 

    13 DOTS entries:

    DT.95170285  DT.412248  DT.121209135  DT.121209306  DT.100722871  DT.121209280  DT.92427484  DT.95170284 
    DT.100889898  DT.121209220  DT.95170283  DT.97781404  DT.100711588 

    24/109 AceView cDNA sequences (see all 109 ):

    CA394585 CR612911 CB135075 BQ221799 BP380262 NM_000946 BC005266 BU165208 
    BU167590 BM452231 CR621514 CR620245 CA952584 BU689163 BU595778 BG940981 
    BU597283 AW604178 BU662200 BE881634 AI268345 BU184356 CA419908 AW950273 

    highest scoring ESTs for PRIM1:

    X74330 BC005266 BE256307 BE537382 BE564598 BE567470 BE733967 BE793427 BF765897 BG388710 

    Unigene Cluster for PRIM1:

    Primase, DNA, polypeptide 1 (49kDa)
    Hs.534339  [show with all ESTs]
    Unigene Representative Sequence: NM_000946


    GeneLoc Exon Structure

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

    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:                                                                                                                        

    About this scheme

    ECgene alternative splicing isoforms for PRIM1

    1 Ensembl transcript including schematic representation:
    ENST00000338193  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    PRIM1 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for PRIM1

    1 / 2 / 3

    3 probe-sets matching PRIM1 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    798_at2, 3 U95-A 2 1.00 0.94 1.00 1.00 X74330 1.00 0.90 0.95 1

    205053_at2, 3 U133-A 2 1.00 0.86 -- -- NM_000946 0.60 0.83 0.73 1

    205053_at2 U133Plus2 2 1.00 0.86 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: ATGAACTTCA

    SOURCE GeneReport for Unigene cluster: Hs.534339

    Expression variation in blood from EXPOLDB for PRIM1

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for PRIM1 gene from 5/25 species (see all 25 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    PRIM11   -- primase, DNA, polypeptide 1 (49kDa) 92.56(n)
    92.77(a)
    607309  XM_844058.1  XP_849151.1 
    chimpanzee
    (Pan troglodytes)
    PRIM11   -- primase, DNA, polypeptide 1 (49kDa) 99.84(n)
    100(a)
    746924  XM_001168535.1  XP_001168535.1 
    cow
    (Bos taurus)
    PRIM11   -- primase, DNA, polypeptide 1 (49kDa) 91.2(n)
    90.8(a)
    506240  XM_582661.3  XP_582661.3 
    mouse
    (Mus musculus)
    Prim11, 5 10 (77.00 cM)5
    DNA primase, p49 subunit1, 5 87.61(n)1
    91.13(a)1
    190751  NM_008921.21  NP_032947.11 
     AI3249825  AK0114565  (see all 13)
    chicken
    (Gallus gallus)
    PRIM11   -- primase, polypeptide 1, 49kDa 63.77(n)
    73.91(a)
    426646  XM_424273.2  XP_424273.2 
    About this table        Species with no ortholog for PRIM1

    ENSEMBL Gene Tree for PRIM1
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Pseudogenes
    2 related pseudogenes


    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/112 NCBI SNPs in PRIM1 are shown (see all 112 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 29)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 12 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs22773391,2
    C,F,H55432336(+) TGGGGT/GCAAAC 1 A/D mis1 ese313Minor allele frequency- G:0.24EA NA EU WA 2520
    rs122962431,2
    F,H55432699(+) AACTTT/CTTGGA 1 -- ng314Minor allele frequency- C:0.01EU EA WA 408
    --
    rs11315141,2
    C55419407(-) CGCATC/ATCTGT 1 I/I syn19Minor allele frequency- A:0.41MN EU EA WA 1018
    rs11315131,2
    C55427000(-) GACTAC/TGACGA 1 Y/Y syn10--------
    rs10265651,2
    A,C,F,H,O55424095(-) CTCCAT/AGCACT 1 -- int116Minor allele frequency- A:0.38EU EA WA NA 1410
    rs20350811,2
    A,C,F,H,O55412146(+) TTGCTG/ATAACA 1 -- int114Minor allele frequency- A:0.40NS MN EU EA WA NA 2296
    rs122990161,2
    A,C,F,H55423905(+) accatC/Taagtc 1 -- int18Minor allele frequency- T:0.01EU EA WA 834
    rs29581301,2
    A,C,F,H55426773(+) TAATAA/GTAGTC 1 -- int14Minor allele frequency- G:0.43EU EA WA 416
    rs118332091,2
    C,F,H55428190(+) ttccaG/Cagagc 1 -- int14Minor allele frequency- C:0.11EU EA WA 420
    rs39433631,2
    C,F,H55423591(-) cagttG/Atatca 1 -- int14Minor allele frequency- A:0.01EU EA WA 420
    About this table

    HapMap Linkage Disequilibrium images for PRIM1 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 176635

    1 Novoseek disease relationship for PRIM1 gene

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    cancer 0.00 1 10441007 (1)
    About this table

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/22 PubMed articles for PRIM1 gene (see all 22 ):
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 5557 HGNC: 9369 AceView: PRIM1 Ensembl:ENSG00000198056 euGenes: HUgn5557
    ECgene: PRIM1 H-InvDB: PRIM1
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

    NameDescription
    ATLAS Chromosomes in Cancer entry for PRIM1 Genetics and Cytogenetics in Oncology and Haematology
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for PRIM1:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Predesigned and custom siRNAs for PRIM1 Antibodies for PRIM1
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for PRIM1 Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
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     Search Novus for antibodies for PRIM1

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