FB2021_01, released Feb 18, 2021

Gene: Dmel\Fancl

Open Close
General Information
Symbol
Dmel\Fancl
Species
D. melanogaster
Name
Fancl
Annotation Symbol
CG12812
Feature Type
protein_coding_gene
FlyBase ID
FBgn0037781
Gene Model Status
Current
Stock Availability
4 publicly available
Gene Snapshot
Fancl (Fancl) encodes a member of the Fanconi anemia pathway, which is a key mediator of DNA damage repair through homologous recombination. When mono-ubiquinated by the Fanconi core complex, it associates with the product of Fancd2 and localizes to sites of DNA damage. [Date last reviewed: 2018-11-15]
Other Summaries
Key Links
Genomic Location
Cytogenetic map
85F8-85F8
Sequence location
3R:10,051,508..10,052,869 [-]
Recombination map

3-49

RefSeq locus
NT_033777 REGION:10051508..10052869
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (7 terms)
Molecular Function (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
enables ubiquitin protein ligase activity
inferred from biological aspect of ancestor with PANTHER:PTN000324788
(assigned by GO_Central )
(Gaudet et al., 2011)
inferred from sequence or structural similarity with HGNC:20748
(FlyBase Curators, 2008--)
enables ubiquitin-protein transferase activity
inferred from sequence or structural similarity with HGNC:20748
(FlyBase Curators, 2008--)
Biological Process (3 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
involved_in DNA repair
inferred from mutant phenotype
(Kuo et al., 2014, Marek and Bale, 2006)
involved_in protein monoubiquitination
inferred from mutant phenotype
(Marek and Bale, 2006)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
involved_in DNA repair
inferred from biological aspect of ancestor with PANTHER:PTN000324788
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in interstrand cross-link repair
inferred from electronic annotation with InterPro:IPR026848
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
involved_in protein monoubiquitination
inferred from biological aspect of ancestor with PANTHER:PTN000324788
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
part_of Fanconi anaemia nuclear complex
inferred from electronic annotation with InterPro:IPR026848
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
located_in nucleus
inferred from biological aspect of ancestor with PANTHER:PTN000324788
(assigned by GO_Central )
(Gaudet et al., 2011)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
OTHER RING DOMAIN UBIQUITIN LIGASES -
The RING (Really Interesting New Gene) finger domain co-ordinates two Zn2+ ions via conserved Cys and His residues. Most proteins which contain a RING finger are assumed to be ubiquitin (E3) ligases. The RING finger binds ubiquitin-conjugating enzymes (E2) and promotes direct transfer of ubiquitin to the target protein. (Adapted from FBrf0215242 and PMID:19489725).
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
2

Please see the JBrowse view of Dmel\Fancl for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Comments on Gene Model

Gene model reviewed during 5.48

Gene model reviewed during 5.53

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Fancl-RA
FBtr0082203
NM_141717
1248
381
Fancl-RB
FBtr0344304
NM_001300337
1245
380
Additional Transcript Data and Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
Fancl-PA
FBpp0081681
43.7
381
4.75
NP_649974
AAF54486
Fancl-PB
FBpp0310705
43.6
380
4.70
NP_001287266
AHN57265
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Fancl using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 3
organism

Comment: maternally deposited

(Fisher et al., 2012)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Fancl in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 1 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 4 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Fancl
Transgenic constructs containing regulatory region of Fancl
Aberrations (Deficiencies and Duplications) ( 1 )
Inferred from experimentation
Gene disrupted in
Df(3R)Exel6155
(Ryder, 2004.4.26)
Inferred from location
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\FANCL
12 of 15
Yes
Yes
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Fancl
10 of 15
Yes
Yes
Rattus norvegicus (Norway rat) (1)
Rnor\Fancl
11 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (1)
Xtro\fancl
8 of 12
Yes
Yes
Danio rerio (Zebrafish) (1)
Drer\fancl
7 of 15
Yes
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\Y105C5B.11
1 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (1)
Atha\AT5G65740
6 of 9
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (0)
No records found.
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG09190DND )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00007743
Drosophila simulans
Dsim\GD20739
Drosophila sechellia
Dsec\GM26190
Drosophila erecta
Dere\GG17306
Drosophila yakuba
Dyak\GE24708
Drosophila ananassae
Dana\GF17137
Drosophila pseudoobscura pseudoobscura
Dpse\GA11825
Drosophila persimilis
Dper\GL27281
Drosophila willistoni
Dwil\GK11033
Drosophila virilis
Dvir\GJ10724
Drosophila mojavensis
Dmoj\GI24447
Drosophila grimshawi
Dgri\GH17888
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091505G4 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17009252
Glossina morsitans
Tsetse fly
Gmor\GMOY005011
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_11800
Mayetiola destructor
Hessian fly
Mdes\Mdes005781
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL003271
Anopheles darlingi
American malaria mosquito
Adar\ADAC009364
Anopheles gambiae
Malaria mosquito
Agam\AGAP005271
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ001067
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0G0Z )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Danaus plexippus
Monarch butterfly
Dple\DPOGS204887-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL009956
Apis florea
Little honeybee
Aflo\2355231508
Apis mellifera
Western honey bee
Amel\GB49338
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP22112
Bombus terrestris
Buff-tailed bumblebee
Bter\15213290
Linepithema humile
Argentine ant
Lhum\LH13337
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:001af2
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG000130
Tribolium castaneum
Red flour beetle
Tcas\GLEAN_15661
Pediculus humanus
Human body louse
Phum\PHUM117540
Rhodnius prolixus
Kissing bug
Rpro\RPRC013883
Cimex lectularius
Bed bug
Clec\CLEC001011
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI002696
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_08816
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0G12 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR009072
Ixodes scapularis
Black-legged tick
Isca\ISCW013679
Stegodyphus mimosarum
African social velvet spider
Smim\KFM63193.1
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_215303
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0PRR )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Pog
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Pog_1
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000019870
Gallus gallus
Domestic chicken
Ggal\FANCL
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (0)
No records found.
Human Disease Associations
FlyBase Human Disease Model Reports
Disease Model Summary Ribbon
Disease Ontology (DO) Annotations
Models Based on Experimental Evidence ( 1 )
Allele
Disease
Evidence
References
FancldsRNA.UAS
model of  Fanconi anemia
CEA
(Marek and Bale, 2006)
Potential Models Based on Orthology ( 1 )
Human Ortholog
Disease
Evidence
References
FANCL; FA complementation group L
model of  Fanconi anemia complementation group L
IEA
(FlyBase, 2019-)
Modifiers Based on Experimental Evidence ( 1 )
Allele
Disease
Interaction
References
FanclGD7835
ameliorates  cancer
modeled by DlUAS.cDa, Not3KK102144
(Vicente et al., 2018)
modeled by DlUAS.cDa, twinKK108897
(Vicente et al., 2018)
Disease Associations of Human Orthologs (via DIOPT v8.0 and OMIM)
Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
Homo sapiens (Human)
Gene name
Score
OMIM
OMIM Phenotype
DO term
Complementation?
Transgene?
FANCL; FA complementation group L
12 of 15
608111
Functional Complementation Data
Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
Interactions
Summary of Physical Interactions
esyN Network Diagram
Show neighbor-neighbor interactions:
Select Layout:
Legend:
Protein
RNA
Selected Interactor(s)
Interactions Browser
View in Interactions Browser
Please see the Physical Interaction reports below for full details
protein-protein
Physical Interaction
Assay
References
Fancl - FANCI
pull down, western blot
(Cole et al., 2010)
Fancl - Fancd2
pull down, western blot
(Cole et al., 2010)
Summary of Genetic Interactions
esyN Network Diagram
esyN Network Key:
Suppression
Enhancement
View in Interactions Browser
Please look at the allele data for full details of the genetic interactions
Starting gene(s)
Interaction type
Interacting gene(s)
Reference
Starting gene(s)
Interaction type
Interacting gene(s)
Reference
Dl|twin
suppressible
Fancl
(Vicente et al., 2018)
Dl|Not3
suppressible
Fancl
(Vicente et al., 2018)
External Data
Linkouts
BioGRID - A database of protein and genetic interactions.
DroID - A comprehensive database of gene and protein interactions.
InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
MIST (protein-protein) - An integrated Molecular Interaction Database
Pathways
Signaling Pathways (FlyBase)
Metabolic Pathways
External Data
Linkouts
KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
Genomic Location and Detailed Mapping Data
Chromosome (arm)
3R
Recombination map

3-49

Cytogenetic map
85F8-85F8
Sequence location
3R:10,051,508..10,052,869 [-]
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
85F8-85F8
Limits computationally determined from genome sequence between P{lacW}s2681 and P{EP}Fmr1EP3517&P{PZ}tws02414
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
Experimentally Determined Recombination Data
Location

3-49

(FlyBase, 2016)

3-46.6

(Comeron et al., 2012)
Left of (cM)
Right of (cM)
Notes
Stocks and Reagents
Stocks (4)
Genomic Clones (16)
 

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (17)
 

Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced
BDGP DGC clones
Other clones
    Drosophila Genomics Resource Center cDNA clones

    For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

    cDNA Clones, End Sequenced (ESTs)
    BDGP DGC clones
    Other clones
    RNAi and Array Information
    Linkouts
    DRSC - Results frm RNAi screens
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    Antibody Information
    Laboratory Generated Antibodies
     
    Commercially Available Antibodies
     
    Other Information
    Relationship to Other Genes
    Source for database identify of

    Source for identity of: Fancl CG12812

    (Marek, 2006.2.28)
    Source for database merge of
    Additional comments
    Other Comments

    Knockdown of Fancl function results in specific hypersensitivity to cross-linking agents, which is observed as a higher frequency of chromosome fusions.

    (Marek and Bale, 2006)
    Origin and Etymology
    Discoverer
    Etymology
    Identification
    External Crossreferences and Linkouts ( 39 )
    Sequence Crossreferences
    NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
    GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
    GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
    RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
    UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
    Other crossreferences
    BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
    Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
    Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
    Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
    Flygut - An atlas of the Drosophila adult midgut
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
    InterPro - A database of protein families, domains and functional sites
    KEGG Genes - Molecular building blocks of life in the genomic space.
    modMine - A data warehouse for the modENCODE project
    Linkouts
    BioGRID - A database of protein and genetic interactions.
    DroID - A comprehensive database of gene and protein interactions.
    DRSC - Results frm RNAi screens
    FLIGHT - Cell culture data for RNAi and other high-throughput technologies
    FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
    FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
    FlyMine - An integrated database for Drosophila genomics
    InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
    KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Synonyms and Secondary IDs (5)
    Datasets (0)
    Study focus (0)
    Experimental Role
    Project
    Project Type
    Title
    References (30)