Gene Gene information from NCBI Gene database.
Entrez ID 55120
Gene name FA complementation group L
Gene symbol FANCL
Synonyms (NCBI Gene)
FAAP43PHF9POG
Chromosome 2
Chromosome location 2p16.1
Summary This gene encodes a ubiquitin ligase that is a member of the Fanconi anemia complementation group (FANC). Members of this group are related by their assembly into a common nuclear protein complex rather than by sequence similarity. This gene encodes the p
SNPs SNP information provided by dbSNP.
9
SNP ID Visualize variation Clinical significance Consequence
rs144729980 C>G,T Likely-pathogenic Splice donor variant, intron variant
rs753105795 G>A,C Pathogenic Coding sequence variant, missense variant, stop gained, non coding transcript variant, intron variant
rs761039364 G>-,GG Pathogenic 5 prime UTR variant, frameshift variant, coding sequence variant, non coding transcript variant
rs779544327 TT>- Pathogenic Frameshift variant, coding sequence variant, non coding transcript variant, intron variant
rs869320684 G>- Pathogenic Frameshift variant, coding sequence variant, non coding transcript variant, intron variant
miRNA miRNA information provided by mirtarbase database.
8
miRTarBase ID miRNA Experiments Reference
MIRT727691 hsa-miR-30a-5p HITS-CLIP 22473208
MIRT727690 hsa-miR-30b-5p HITS-CLIP 22473208
MIRT727688 hsa-miR-30c-5p HITS-CLIP 22473208
MIRT727689 hsa-miR-30d-5p HITS-CLIP 22473208
MIRT727687 hsa-miR-30e-5p HITS-CLIP 22473208
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
34
GO ID Ontology Definition Evidence Reference
GO:0000785 Component Chromatin IDA 22343915
GO:0004842 Function Ubiquitin-protein transferase activity IDA 16916645, 19111657
GO:0004842 Function Ubiquitin-protein transferase activity IEA
GO:0004842 Function Ubiquitin-protein transferase activity ISS
GO:0005515 Function Protein binding IPI 24389026, 25416956, 32296183, 35512704
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
608111 20748 ENSG00000115392
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q9NW38
Protein name E3 ubiquitin-protein ligase FANCL (EC 2.3.2.27) (Fanconi anemia group L protein) (Fanconi anemia-associated polypeptide of 43 kDa) (FAAP43) (RING-type E3 ubiquitin transferase FANCL)
Protein function Ubiquitin ligase protein that mediates monoubiquitination of FANCD2 in the presence of UBE2T, a key step in the DNA damage pathway (PubMed:12973351, PubMed:16916645, PubMed:17938197, PubMed:19111657, PubMed:24389026). Also mediates monoubiquitin
PDB 3ZQS , 4CCG , 7KZP , 7KZQ , 7KZR , 7KZS , 7KZT , 7KZV
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF09765 FANCL_d1 5 93 FANCL UBC-like domain 1 Domain
PF18890 FANCL_d2 108 197 FANCL UBC-like domain 2 Domain
PF18891 FANCL_d3 199 295 FANCL UBC-like domain 3 Domain
PF11793 FANCL_C 303 371 FANCL C-terminal domain Domain
Sequence
Sequence length 375
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Fanconi anemia pathway
Ubiquitin mediated proteolysis
  Fanconi Anemia Pathway
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
31
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
FANCL-related disorder Likely pathogenic rs2466610093 RCV003406179
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Fanconi anemia Likely pathogenic; Pathogenic rs750871999, rs768814501, rs1558735946, rs1490932431, rs1191111879, rs772037896, rs1196510455, rs2104783888, rs2105148069, rs1423411761, rs1693048371, rs779587713, rs1204245665, rs1386476396, rs2467657340
View all (57 more)
RCV005408836
RCV001377977
RCV001384023
RCV001390762
RCV003635972
View all (73 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Fanconi anemia complementation group A Pathogenic rs2104799592 RCV002227888
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Fanconi anemia complementation group L Likely pathogenic; Pathogenic rs750871999, rs768814501, rs1490932431, rs2104799800, rs772037896, rs1693048371, rs2467657643, rs779587713, rs2467657340, rs869320684, rs869320685, rs771742741, rs2104795249, rs2466546655, rs1364312021
View all (33 more)
RCV002504517
RCV003462954
RCV004570975
RCV001806294
RCV005032201
View all (44 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Acute myeloid leukemia Benign; Uncertain significance ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cervical cancer Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cholangiocarcinoma Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Chronic lymphocytic leukemia/small lymphocytic lymphoma Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Acute leukemia Leukemia BEFREE 18607065
★☆☆☆☆
Found in Text Mining only
Acute lymphocytic leukemia Lymphocytic Leukemia BEFREE 18607065, 2400810, 25987655
★☆☆☆☆
Found in Text Mining only
Acute monocytic leukemia Monocytic Leukemia GENOMICS_ENGLAND_DG 28297620
★☆☆☆☆
Found in Text Mining only
Adult Acute Lymphocytic Leukemia Lymphocytic Leukemia BEFREE 2400810, 25987655
★☆☆☆☆
Found in Text Mining only
Anemia Anemia HPO_DG
★☆☆☆☆
Found in Text Mining only
Anemia Hemolytic Hemolytic anemia Pubtator 30942098, 36894310 Associate
★☆☆☆☆
Found in Text Mining only
Anus, Imperforate Imperforate anus HPO_DG
★☆☆☆☆
Found in Text Mining only
Astigmatism Astigmatism HPO_DG
★☆☆☆☆
Found in Text Mining only
Atrial Septal Defects Atrial Septal Defect HPO_DG
★☆☆☆☆
Found in Text Mining only
Azoospermia Azoospermia HPO_DG
★☆☆☆☆
Found in Text Mining only