FB2025_01 , released February 20, 2025
Gene: Dmel\Hacl
Open Close
General Information
Symbol
Dmel\Hacl
Species
D. melanogaster
Name
2-hydroxyacyl-CoA lyase
Annotation Symbol
CG11208
Feature Type
protein_coding_gene
FlyBase ID
FBgn0034488
Gene Model Status
Current
Stock Availability
7 publicly available
Enzyme Name (EC)
2-hydroxyacyl-CoA lyase (4.1.2.63)
Gene Summary
Contribute a Gene Snapshot for this gene.
All Summaries
Also Known As

HACL1

Key Links
Genomic Location
Cytogenetic map
56F11-56F11
Sequence location
Recombination map
2-90
RefSeq locus
NT_033778 REGION:20242752..20245388
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
Gene Ontology (GO) Annotations (6 terms)
Molecular Function (4 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
enables 2-hydroxyacyl-CoA lyase activity
inferred from sequence or structural similarity with UniProtKB:Q9UJ83
(Gene Ontology Curators, 2002-)
enables catalytic activity
inferred from electronic annotation with InterPro:IPR011766
(InterPro Project Members, 2004-)
enables magnesium ion binding
inferred from electronic annotation with InterPro:IPR012000
(InterPro Project Members, 2004-)
enables thiamine pyrophosphate binding
(InterPro Project Members, 2004-)
inferred from biological aspect of ancestor with PANTHER:PTN000438683
(GO Reference Genome Project, 2011-)
Biological Process (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
involved_in fatty acid alpha-oxidation
inferred from sequence or structural similarity with HGNC:17856
(Faust et al., 2012)
inferred from biological aspect of ancestor with PANTHER:PTN000438683
(GO Reference Genome Project, 2011-)
Cellular Component (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
is_active_in peroxisome
inferred from biological aspect of ancestor with PANTHER:PTN000438685
(GO Reference Genome Project, 2011-)
located_in peroxisome
inferred from sequence or structural similarity with HGNC:17856
(Faust et al., 2012)
inferred from sequence model
(Faust et al., 2012)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Catalytic Activity (EC/Rhea)
2-hydroxyacyl-CoA lyase activity
(1) a 2-hydroxy-3-methyl fatty acyl-CoA = a 2-methyl-branched fatty aldehyde + formyl-CoA (4.1.2.63)
(2) an (R)-2-hydroxy-long-chain-fatty acyl-CoA = a long-chain fatty aldehyde + formyl-CoA (4.1.2.63)
Summaries
Gene Group (FlyBase)
ALDEHYDE-LYASES -
Aldehyde-lyases catalyze the cleavage of carbon-carbon bond in alcohols into carbanions and aldehydes. The vast majority are aldolases, involved in carbohydrate metabolism. (Adapted from FBrf0238856).
Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\Hacl 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
Structure
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry Q7K3B7)

If you don't see a structure in the viewer, refresh your browser.
Model Confidence:
  • Very high (pLDDT > 90)
  • Confident (90 > pLDDT > 70)
  • Low (70 > pLDDT > 50)
  • Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures
Crossreferences
Comments on Gene Model

Gene model reviewed during 5.51

Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Hacl-RA
FBtr0086322
NM_137616
1984
568
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
UniProt
RefSeq ID
GenBank
Hacl-PA
FBpp0085630
62.3
568
7.51
Q7K3B7
NP_611460
AAF57501
Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

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\Hacl 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
Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

-0.48

Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 3
organism

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4 -- 6
anlage in statu nascendi
(Fisher et al., 2012)
anterior endoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
central brain anlage in statu nascendi
(Fisher et al., 2012)
visual anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)
antennal anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)
dorsal head epidermis anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)
embryonic stage 7 -- 8
antennal anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
central brain anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
visual anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
anterior endoderm anlage
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 9 -- 10
antennal primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
central brain primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
visual primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
dorsal head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
lateral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
ventral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
anterior endoderm
(Fisher et al., 2012)
head mesoderm
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
embryonic stage 11 -- 12
anterior midgut primordium
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
posterior midgut primordium
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
embryonic stage 13 -- 16
embryonic midgut chamber
(Fisher et al., 2012)
embryonic/larval midgut
(Fisher et al., 2012)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult head
• membrane
(Aradska et al., 2015)
day 7 of adulthood -- day 49 of adulthood
adult heart
(Cammarato et al., 2011)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Hacl in JBrowse
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
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 1-3
  • Stages(s) 4-6
  • Stages(s) 7-8
  • Stages(s) 9-10
  • Stages(s) 11-12
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 3 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 6 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Hacl
Transgenic constructs containing regulatory region of Hacl
Aberrations (Deficiencies and Duplications) ( 0 )
Inferred from experimentation ( 0 )
Inferred from location ( 3 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
partially lethal - majority die, with Scer\GAL4pnr-MD237
viable, with Scer\GAL4Mef2.PR
viable, with Scer\GAL4tin.CΔ4
Other Phenotypes
Allele
some die during pupal stage, with Scer\GAL4pnr-MD237
Phenotype manifest in
Allele
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (2)
Hsap\HACL1
14 of 14
Yes
Yes
Hsap\ILVBL
4 of 14
No
Yes
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (2)
Rnor\Hacl1
14 of 14
Yes
Yes
Rnor\Ilvbl
4 of 14
No
Yes
Mus musculus (laboratory mouse) (2)
Mmus\Hacl1
13 of 14
Yes
Yes
Mmus\Ilvbl
4 of 14
No
Yes
Xenopus tropicalis (Western clawed frog) (3)
Xtro\hacl1
8 of 13
Yes
Yes
Xtro\ripor2
1 of 13
No
Yes
Xtro\wipi2
1 of 13
No
No
Danio rerio (Zebrafish) (2)
Drer\hacl1
14 of 14
Yes
Yes
Drer\ilvbl
4 of 14
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (3)
Cele\B0334.3
13 of 14
Yes
Yes
Cele\T26C12.1
4 of 14
No
Yes
Cele\acs-6
1 of 14
No
No
Anopheles gambiae (African malaria mosquito) (1)
Agam\AgaP_AGAP010368
12 of 12
Yes
Yes
Arabidopsis thaliana (thale-cress) (8)
Atha\AT5G17380
13 of 13
Yes
Yes
Atha\CSR1
3 of 13
No
Yes
Atha\AAE3
1 of 13
No
No
Atha\AT4G33070
1 of 13
No
Yes
Atha\AT5G01320
1 of 13
No
Yes
Atha\PDC2
1 of 13
No
Yes
Atha\PDC3
1 of 13
No
Yes
Atha\PHYLLO
1 of 13
No
No
Saccharomyces cerevisiae (Brewer's yeast) (7)
Scer\PXP1
13 of 13
Yes
Yes
Scer\ILV2
3 of 13
No
Yes
Scer\ARO10
1 of 13
No
Yes
Scer\PDC1
1 of 13
No
Yes
Scer\PDC5
1 of 13
No
Yes
Scer\PDC6
1 of 13
No
Yes
Scer\THI3
1 of 13
No
Yes
Schizosaccharomyces pombe (Fission yeast) (6)
Spom\SPBC725.04
12 of 12
Yes
Yes
Spom\ilv1
3 of 12
No
Yes
Spom\SPAC1F8.07c
1 of 12
No
Yes
Spom\SPAC3G9.11c
1 of 12
No
Yes
Spom\SPAC13A11.06
1 of 12
No
Yes
Spom\SPAC186.09
1 of 12
No
Yes
Escherichia coli (enterobacterium) (5)
Ecol\oxc
10 of 11
Yes
Yes
Ecol\ilvB
3 of 11
No
Yes
Ecol\ilvI
3 of 11
No
Yes
Ecol\poxB
2 of 11
No
Yes
Ecol\gcl
1 of 11
No
Yes
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:Hacl. Refer to their site for version information.
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v9.1)
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 0 )
    Human Ortholog
    Disease
    Evidence
    References
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Disease Associations of Human Orthologs (via DIOPT v9.1 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?
    HACL1; 2-hydroxyacyl-CoA lyase 1
    14 of 14
    604300
        ILVBL; ilvB acetolactate synthase like
        4 of 14
        605770
            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
            Other Interaction Browsers
            Summary of Genetic Interactions
            esyN Network Diagram
            Other Interaction Browsers
            Starting gene(s)
            Interaction type
            Interacting gene(s)
            Reference
            Starting gene(s)
            Interaction type
            Interacting gene(s)
            Reference
            External Data
            Linkouts
            BioGRID - A database of protein and genetic interactions.
            DroID - A comprehensive database of gene and protein interactions.
            Pathways
            Signaling Pathways (FlyBase)
            Metabolic Pathways
            FlyBase
            External Links
            FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel
            Reactome Metabolic Pathways - An open-source, open access, manually curated and peer-reviewed metabolic pathway database.
            External Data
            Linkouts
            KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
            Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
            Class of Gene
            Genomic Location and Detailed Mapping Data
            Chromosome (arm)
            2R
            Recombination map
            2-90
            Cytogenetic map
            56F11-56F11
            Sequence location
            FlyBase Computed Cytological Location
            Cytogenetic map
            Evidence for location
            56F11-56F11
            Limits computationally determined from genome sequence between P{lacW}l(2)k08002k08002 and P{lacW}Ate1k10809
            Experimentally Determined Cytological Location
            Cytogenetic map
            Notes
            References
            Experimentally Determined Recombination Data
            Location

            2-90

            (FlyBase, 2016)

            2-96.2

            (Comeron et al., 2012)
            Left of (cM)
            Right of (cM)
            Notes
            Stocks and Reagents
            Stocks (7)
            Genomic Clones (10)
             

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

            cDNA Clones (62)
             

            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 JBrowse 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
            Antibody Information
            Laboratory Generated Antibodies
             
            Commercially Available Antibodies
             
            Cell Line Information
            Publicly Available Cell Lines
             
              Other Stable Cell Lines
               
                Other Comments

                Area matching Drosophila EST AA696531. This EST has sequence similarity to C. elegans pro7 gene, Z66519.

                (Davies, 2001.3.15)
                Relationship to Other Genes
                Source for database merge of

                Source for merge of: CG11208 anon-WO0118547.196

                (FlyBase, 1996-)
                Additional comments

                Source for merge of CG11208 anon-WO0118547.196 was sequence comparison ( date:051113 ).

                (FlyBase, 1996-)
                Nomenclature History
                Source for database identify of

                Source for identity of: Hacl CG11208

                (FlyBase, 2017-)
                Nomenclature comments
                Etymology

                Named 'Hacl' after the human ortholog.

                (FlyBase, 2017-)
                Synonyms and Secondary IDs (6)
                Datasets (0)
                Study focus (0)
                Experimental Role
                Project
                Project Type
                Title
                Study result (0)
                Result
                Result Type
                Title
                External Crossreferences and Linkouts ( 43 )
                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/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.
                UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
                Other crossreferences
                AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.
                BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
                DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
                EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
                FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
                FlyMine - An integrated database for Drosophila genomics
                InterPro - A database of protein families, domains and functional sites
                KEGG Genes - Molecular building blocks of life in the genomic space.
                MARRVEL_MODEL - MARRVEL (model organism gene)
                Linkouts
                BioGRID - A database of protein and genetic interactions.
                Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
                DroID - A comprehensive database of gene and protein interactions.
                DRSC - Results frm RNAi screens
                Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
                FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
                FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
                FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel
                Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
                Flygut - An atlas of the Drosophila adult midgut
                FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.
                iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
                KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
                Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
                Reactome Metabolic Pathways - An open-source, open access, manually curated and peer-reviewed metabolic pathway database.
                References (51)