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    FANCL Fanconi anemia, complementation group L [ Homo sapiens (human) ]

    Gene ID: 55120, updated on 22-May-2013
    Official Symbol
    FANCLprovided by HGNC
    Official Full Name
    Fanconi anemia, complementation group Lprovided by HGNC
    Primary source
    HGNC:20748
    See related
    Ensembl:ENSG00000115392; HPRD:06997; MIM:608111; Vega:OTTHUMG00000129349
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    POG; PHF9; FAAP43
    Summary
    The Fanconi anemia complementation group (FANC) currently includes FANCA, FANCB, FANCC, FANCD1 (also called BRCA2), FANCD2, FANCE, FANCF, FANCG, FANCI, FANCJ (also called BRIP1), FANCL, FANCM and FANCN (also called PALB2). The previously defined group FANCH is the same as FANCA. Fanconi anemia is a genetically heterogeneous recessive disorder characterized by cytogenetic instability, hypersensitivity to DNA crosslinking agents, increased chromosomal breakage, and defective DNA repair. The members of the Fanconi anemia complementation group do not share sequence similarity; they are related by their assembly into a common nuclear protein complex. This gene encodes the protein for complementation group L. Alternative splicing results in two transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]
    Location :
    2p16.1
    Sequence :
    Chromosome: 2; NC_000002.11 (58386378..58468515, complement)
    See FANCL in Epigenomics, MapViewer

    Chromosome 2 - NC_000002.11Genomic Context describing neighboring genes Neighboring gene eukaryotic translation initiation factor 2, subunit 2 beta pseudogene 7 Neighboring gene actin, gamma 1 pseudogene Neighboring gene vaccinia related kinase 2 Neighboring gene eukaryotic translation initiation factor 3, subunit F pseudogene 3 Neighboring gene IK cytokine, down-regulator of HLA II pseudogene

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    Fanconi anemia, complementation group L

    Summary from GeneReviews: Fanconi Anemia Go to GeneReviews

    Disease Characteristics
    Fanconi anemia (FA) is characterized by physical abnormalities, bone marrow failure, and increased risk of malignancy. Physical abnormalities, present in 60%-75% of affected individuals, include one or more of the following: short stature; abnormal skin pigmentation; malformations of the thumbs, forearms, skeletal system, eyes, kidneys and urinary tract, ears (and decreased hearing), heart, gastrointestinal system, central nervous system; hypogonadism; and developmental delay. Progressive bone marrow failure with pancytopenia typically presents in the first decade, often initially with thrombocytopenia or leukopenia. By age 40 to 50 years, the estimated cumulative incidence of bone marrow failure is 90%; the incidence of hematologic malignancies (primarily acute myeloid leukemia) 10%-30%; and of nonhematologic malignancies (solid tumors, particularly of the head and neck, skin, GI tract, and genital tract) 25%-30%.
    Diagnosis Testing
    The diagnosis of FA rests upon the detection of chromosomal aberrations (breaks, rearrangements, radials, exchanges) in cells after culture with a DNA interstrand cross-linking agent such as diepoxybutane (DEB) or mitomycin C (MMC). Molecular genetic testing is complicated by the presence of at least 15 genes, which are responsible for the known FA complementation groups (A, B, C, D1 [BRCA2], D2, E, F, G, I, J [BRIP1], L, M, N [PALB2], O [RAD51C], and P [SLX4]). The latter two genes are still thought of as tentative as they do not fall within a very easily characterized compartment biologically and have very few representative individuals. If the relevant complementation group is identified, molecular genetic testing can be directed to the appropriate gene. Molecular genetic testing is clinically available for all of the genes.
    Genetic Counseling
    Abnormalities of Fanconi anemia (FA) genes are inherited in an autosomal recessive manner except for mutations in FANCB, which are inherited in an X-linked manner. Autosomal recessive FA: Each sibling of an affected individual has a 25% chance of inheriting both mutations and being affected, a 50% chance of inheriting one mutated gene and being a carrier, and a 25% chance of inheriting both normal genes and not being a carrier. Carriers (heterozygotes) for autosomal recessive FA are asymptomatic. X-linked FA: For carrier females the chance of transmitting the mutation in each pregnancy is 50%; males who inherit the mutation will be affected; females who inherit the mutation will be carriers and will usually not be affected. For both autosomal recessive and X-linked FA: Carrier testing for at-risk relatives and prenatal testing for pregnancies at increased risk are possible for all known genes if the disease-causing mutations in the family are known.
    References
    Products Interactant Other Gene Complex Source Pubs Description
    Q9NW38 Q04771 ACVR1    HPRD  PubMed  
    Q9NW38 O00238 BMPR1B    HPRD  PubMed  
    Q9NW38 Chromosome 17 open reading frame 70 C17orf70    HPRD  PubMed  
    Q9NW38 Q86UU5 GGN    HPRD  PubMed  
    Q9NW38 Q14469 HES1    HPRD  PubMed  
    Q9NW38 P36897 TGFBR1    HPRD  PubMed  
    BioGRID:120429 BioGRID:132044 APITD1    BioGRID  PubMed Affinity Capture-MS; Affinity Capture-Western; Co-localization 
    BioGRID:120429 BioGRID:123196 C17orf70    BioGRID  PubMed Affinity Capture-MS; Affinity Capture-Western; Co-purification 
    BioGRID:120429 BioGRID:124833 C19orf40    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:120429 BioGRID:128288 C1orf86    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:120429 BioGRID:107880 CTNNB1    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:120429 BioGRID:108472 FANCA    BioGRID  PubMed Affinity Capture-MS; Affinity Capture-Western 
    BioGRID:120429 BioGRID:108482 FANCB    BioGRID  PubMed Affinity Capture-MS; Affinity Capture-Western; Two-hybrid 
    BioGRID:120429 BioGRID:108473 FANCC    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:120429 BioGRID:108474 FANCD2    BioGRID  PubMed Biochemical Activity; Protein-peptide 
    BioGRID:120429 BioGRID:108483 FANCF    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:120429 BioGRID:108484 FANCG    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:120429 BioGRID:120511 FANCI    BioGRID  PubMed Biochemical Activity; Protein-peptide 
    BioGRID:120429 BioGRID:120429 FANCL    BioGRID  PubMed Affinity Capture-MS; Biochemical Activity 
    BioGRID:120429 BioGRID:121722 FANCM    BioGRID  PubMed Affinity Capture-MS; Affinity Capture-Western 
    BioGRID:120429 BioGRID:109514 HES1    BioGRID  PubMed Affinity Capture-MS; Affinity Capture-Western; Two-hybrid 
    BioGRID:120429 BioGRID:34316 MHF1    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:120429 BioGRID:36973 MHF2    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:120429 BioGRID:111142 PCNA    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex 
    BioGRID:120429 BioGRID:128376 STRA13    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:120429 BioGRID:113164 UBC    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:120429 BioGRID:115791 UBD    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:120429 BioGRID:118858 UBE2T    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex; Two-hybrid 
    BioGRID:120429 BioGRID:120572 UBE2W    BioGRID  PubMed PCA; Reconstituted Complex 
    • BARD1 signaling events, organism-specific biosystem (from Pathway Interaction Database)
      BARD1 signaling events, organism-specific biosystem
      BARD1 signaling events
    • DNA Repair, organism-specific biosystem (from REACTOME)
      DNA Repair, organism-specific biosystemDNA repair is a phenomenal multi-enzyme, multi-pathway system required to ensure the integrity of the cellular genome. These cellular mechanisms that must cope with the plethora of DNA base pair ad...
    • FA core complex, organism-specific biosystem (from KEGG)
      FA core complex, organism-specific biosystemStructural complex; Genetic information processing; Repair system
    • Fanconi Anemia pathway, organism-specific biosystem (from REACTOME)
      Fanconi Anemia pathway, organism-specific biosystemFanconi anemia (FA) is a genetic disease of genome instability characterized by congenital skeletal defects, aplastic anemia, susceptibility to leukemias, and cellular sensitivity to DNA damaging age...
    • Fanconi anemia pathway, organism-specific biosystem (from KEGG)
      Fanconi anemia pathway, organism-specific biosystemThe Fanconi anemia pathway is required for the efficient repair of damaged DNA, especially interstrand cross-links (ICLs). DNA ICL is directly recognized by FANCM and associated proteins, that recrui...
    • Fanconi anemia pathway, conserved biosystem (from KEGG)
      Fanconi anemia pathway, conserved biosystemThe Fanconi anemia pathway is required for the efficient repair of damaged DNA, especially interstrand cross-links (ICLs). DNA ICL is directly recognized by FANCM and associated proteins, that recrui...
    • Ubiquitin mediated proteolysis, organism-specific biosystem (from KEGG)
      Ubiquitin mediated proteolysis, organism-specific biosystemProtein ubiquitination plays an important role in eukaryotic cellular processes. It mainly functions as a signal for 26S proteasome dependent protein degradation. The addition of ubiquitin to protein...
    • Ubiquitin mediated proteolysis, conserved biosystem (from KEGG)
      Ubiquitin mediated proteolysis, conserved biosystemProtein ubiquitination plays an important role in eukaryotic cellular processes. It mainly functions as a signal for 26S proteasome dependent protein degradation. The addition of ubiquitin to protein...

    Markers

    Homology

    Clone Names

    • FLJ10335

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    ubiquitin protein ligase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    ubiquitin-protein ligase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    ubiquitin-protein ligase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    ubiquitin-protein ligase activity TAS
    Traceable Author Statement
    more info
     
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    DNA repair IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    DNA repair TAS
    Traceable Author Statement
    more info
     
    gamete generation IEA
    Inferred from Electronic Annotation
    more info
     
    protein monoubiquitination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    response to DNA damage stimulus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    Fanconi anaemia nuclear complex IDA
    Inferred from Direct Assay
    more info
     
    cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    nuclear envelope IEA
    Inferred from Electronic Annotation
    more info
     
    nucleoplasm TAS
    Traceable Author Statement
    more info
     
    Preferred Names
    E3 ubiquitin-protein ligase FANCL
    Names
    E3 ubiquitin-protein ligase FANCL
    PHD finger protein 9
    fanconi anemia group L protein
    fanconi anemia-associated polypeptide of 43 kDa

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_007418.1 RefSeqGene

      Range
      5000..87137
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001114636.1NP_001108108.1  E3 ubiquitin-protein ligase FANCL isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AK001197, AK225147, BC041627, DB032206
      Consensus CDS
      CCDS46294.1
      UniProtKB/Swiss-Prot
      Q9NW38
      Related
      ENSP00000385021, OTTHUMP00000201190, ENST00000402135, OTTHUMT00000325254
      Conserved Domains (2) summary
      pfam09765
      Location:8300
      Blast Score: 1095
      WD-3; WD-repeat region
      pfam11793
      Location:308376
      Blast Score: 341
      FANCL_C; FANCL C-terminal domain
    2. NM_018062.3NP_060532.2  E3 ubiquitin-protein ligase FANCL isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) has an alternate splice site in the CDS, as compared to variant 1. The resulting isoform (2) lacks an internal segment and has identical N- and C-termini, as compared to isoform 1.
      Source sequence(s)
      AK001197, AK225147, BC009042, DB032206
      Consensus CDS
      CCDS1860.1
      UniProtKB/Swiss-Prot
      Q9NW38
      Related
      ENSP00000233741, OTTHUMP00000159703, ENST00000233741, OTTHUMT00000251497
      Conserved Domains (2) summary
      pfam09765
      Location:8295
      Blast Score: 1099
      WD-3; WD-repeat region
      pfam11793
      Location:303371
      Blast Score: 341
      FANCL_C; FANCL C-terminal domain

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 104

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh37.p10 Primary Assembly

    Genomic

    1. NC_000002.11 Reference GRCh37.p10 Primary Assembly

      Range
      58386378..58468515, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000134.1 Alternate HuRef

      Range
      58127658..58209806, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate CHM1_1.0

    Genomic

    1. NC_018913.1 Alternate CHM1_1.0

      Range
      58251437..58333537, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

      Supplemental Content

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