FB2021_01, released Feb 18, 2021

Gene: Dmel\Chpf

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General Information
Symbol
Dmel\Chpf
Species
D. melanogaster
Name
Chondroitin polymerizing factor
Annotation Symbol
CG43313
Feature Type
protein_coding_gene
FlyBase ID
FBgn0263005
Gene Model Status
Current
Stock Availability
9 publicly available
Gene Snapshot
Contributions welcome
Other Summaries
Key Links
Genomic Location
Cytogenetic map
11D10-11D11
Sequence location
X:13,095,571..13,112,462 [-]
Recombination map

1-41

RefSeq locus
NC_004354 REGION:13095571..13112462
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 (5 terms)
Molecular Function (3 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
enables acetylgalactosaminyltransferase activity
inferred from biological aspect of ancestor with PANTHER:PTN000961849
(assigned by GO_Central )
(Gaudet et al., 2011)
enables glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity
inferred from sequence or structural similarity with UniProtKB:Q8IZ52
(FlyBase Curators, 2008--)
inferred from biological aspect of ancestor with PANTHER:PTN000961885
(assigned by GO_Central )
(Gaudet et al., 2011)
enables N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity
inferred from sequence or structural similarity with UniProtKB:Q8IZ52
(FlyBase Curators, 2008--)
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 chondroitin sulfate biosynthetic process
inferred from sequence or structural similarity with UniProtKB:Q8IZ52
(FlyBase Curators, 2008--)
inferred from biological aspect of ancestor with PANTHER:PTN000961885
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
located_in Golgi cisterna membrane
inferred from electronic annotation with InterPro:IPR008428
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
CHONDROITIN SYNTHASES -
Chondroitin synthases possess a galactosaminyltransferase activity that contributes to the elongation of chondroitin, a glycosaminoglycan that plays a key role in tissue development and morphogenesis. (Adapted from PMID: 21468578.)
GLUCURONOSYLTRANSFERASES -
Glucuronosyltransferases catalyze the conjugation of glucuronic acid from UDP-glucuronate to an acceptor, typically a small lipophilic molecule. (Adapted from PMID:26453144.)
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\Chpf 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 5.50

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.56

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Chpf-RA
FBtr0306847
NM_132625
3781
819
Chpf-RB
FBtr0346130
NM_001298255
4326
819
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
Chpf-PA
FBpp0297743
93.4
819
7.94
NP_572853
AAF48225
Chpf-PB
FBpp0311959
93.4
819
7.94
NP_001285184
AHN59654
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

819 aa isoforms: Chpf-PA, Chpf-PB
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\Chpf 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
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\Chpf 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
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 10 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 5 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Chpf
Transgenic constructs containing regulatory region of Chpf
Aberrations (Deficiencies and Duplications) ( 0 )
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (3)
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\CHPF
14 of 15
Yes
Yes
Hsap\CHPF2
12 of 15
No
Yes
Hsap\MIR671
2 of 15
No
Yes
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (3)
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\Chpf2
13 of 15
Yes
Yes
Mmus\Chpf
13 of 15
Yes
Yes
Mmus\Saxo1
1 of 15
No
No
Rattus norvegicus (Norway rat) (3)
Rnor\Chpf
13 of 13
Yes
Yes
Rnor\Chpf2
12 of 13
No
Yes
Rnor\Saxo1
1 of 13
No
No
Xenopus tropicalis (Western clawed frog) (3)
Xtro\chpf2
8 of 12
Yes
Yes
Xtro\chpf
3 of 12
No
Yes
Xtro\saxo2
1 of 12
No
No
Danio rerio (Zebrafish) (4)
Drer\chpf2
13 of 15
Yes
Yes
Drer\chpfb
13 of 15
Yes
Yes
Drer\chpfa
12 of 15
No
Yes
Drer\saxo2
1 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\mig-22
12 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (0)
No records found.
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) ( EOG09190343 )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00006399
Drosophila simulans
Dsim\GD24523
Drosophila sechellia
Dsec\GM11517
Drosophila erecta
Dere\GG19525
Drosophila yakuba
Dyak\GE16179
Drosophila ananassae
Dana\GF20873
Drosophila pseudoobscura pseudoobscura
Dpse\GA18127
Drosophila persimilis
Dper\GL16491
Drosophila willistoni
Dwil\GK25019
Drosophila virilis
Dvir\GJ16903
Drosophila mojavensis
Dmoj\GI16262
Drosophila grimshawi
Dgri\GH24548
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG0915035D )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17011128
Musca domestica
House fly
Mdoa\17025974
Glossina morsitans
Tsetse fly
Gmor\GMOY008079
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_10401
Mayetiola destructor
Hessian fly
Mdes\Mdes003379
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL010569
Anopheles darlingi
American malaria mosquito
Adar\ADAC006271
Anopheles gambiae
Malaria mosquito
Agam\AGAP001050
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ017767
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ008130
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ018456
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ018093
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ002670
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W03C6 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Danaus plexippus
Monarch butterfly
Dple\DPOGS202474-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL004156
Apis florea
Little honeybee
Aflo\2428612196
Apis mellifera
Western honey bee
Amel\GB45228
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP22858
Bombus terrestris
Buff-tailed bumblebee
Bter\15210442
Linepithema humile
Argentine ant
Lhum\LH17475
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:0003c5
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG006761
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG025272
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_11763
Tribolium castaneum
Red flour beetle
Tcas\TC033453
Pediculus humanus
Human body louse
Phum\PHUM539580
Rhodnius prolixus
Kissing bug
Rpro\RPRC008670
Cimex lectularius
Bed bug
Clec\CLEC001938
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI006949
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_01513
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0391 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR009974
Ixodes scapularis
Black-legged tick
Isca\ISCW008742
Stegodyphus mimosarum
African social velvet spider
Smim\KFM81515.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur37g00060
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_260261
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_52547
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G04Y5 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Css2
Ciona intestinalis
Vase tunicate
Cint\LOC100187456
Gallus gallus
Domestic chicken
Ggal\CHPF
Gallus gallus
Domestic chicken
Ggal\CHPF2
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (2)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
Chsy
2 of 10
Csgalnact
2 of 10
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    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 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?
    CHPF; chondroitin polymerizing factor
    14 of 15
    610405
        CHPF2; chondroitin polymerizing factor 2
        12 of 15
        608037
            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
            Interactions Browser
            Summary of Genetic Interactions
            esyN Network Diagram
            Starting gene(s)
            Interaction type
            Interacting gene(s)
            Reference
            Starting gene(s)
            Interaction type
            Interacting gene(s)
            Reference
            External Data
            Linkouts
            DroID - A comprehensive database of gene and protein interactions.
            Pathways
            Signaling Pathways (FlyBase)
            Metabolic Pathways
            External Data
            Linkouts
            KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
            Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
            Genomic Location and Detailed Mapping Data
            Chromosome (arm)
            X
            Recombination map

            1-41

            Cytogenetic map
            11D10-11D11
            Sequence location
            X:13,095,571..13,112,462 [-]
            FlyBase Computed Cytological Location
            Cytogenetic map
            Evidence for location
            11D10-11D11
            Limits computationally determined from genome sequence between P{EP}EP1461 and P{EP}CG1640EP1626
            Experimentally Determined Cytological Location
            Cytogenetic map
            Notes
            References
            Experimentally Determined Recombination Data
            Location

            1-41

            (FlyBase, 2016)

            1-41.5

            (Comeron et al., 2012)
            Left of (cM)
            Right of (cM)
            Notes
            Stocks and Reagents
            Stocks (9)
            Genomic Clones (12)
             

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

            cDNA Clones (16)
             

            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
              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: Chpf CG43313

              (Yamamoto-Hino et al., 2015)
              Source for database merge of

              Source for merge of: CG4351 CG12714

              (FlyBase Genome Annotators, 2011)
              Additional comments

              Annotations CG4351 and CG12714 merged as CG43313 in release 5.35 of the genome annotation.

              (FlyBase Genome Annotators, 2011)
              Other Comments
              Origin and Etymology
              Discoverer
              Etymology
              Identification
              External Crossreferences and Linkouts ( 28 )
              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
              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
              GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
              InterPro - A database of protein families, domains and functional sites
              KEGG Genes - Molecular building blocks of life in the genomic space.
              Linkouts
              DroID - A comprehensive database of gene and protein interactions.
              KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
              Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
              Synonyms and Secondary IDs (7)
              Reported As
              Symbol Synonym
              CG12714
              (Keleman et al., 2009.8.5)
              CG34413
              (Gupta and Stocker, 2020)
              CG43313
              (Gene Disruption Project members, 2016-, Yamamoto-Hino et al., 2015, FlyBase Genome Annotators, 2011, Ni et al., 2010.12.1)
              CG4351
              (Ashwal-Fluss et al., 2014)
              Chpf
              dCHPF
              (Yamamoto-Hino et al., 2015)
              Name Synonyms
              Chondroitin polymerizing factor
              Secondary FlyBase IDs
              • FBgn0030448
              • FBgn0040862
              Datasets (0)
              Study focus (0)
              Experimental Role
              Project
              Project Type
              Title
              References (26)