FB2020_06, released Dec 22, 2020

Gene: Dmel\Drgx

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General Information
Symbol
Dmel\Drgx
Species
D. melanogaster
Name
Dorsal root ganglia homeobox
Annotation Symbol
CG34340
Feature Type
protein_coding_gene
FlyBase ID
FBgn0085369
Gene Model Status
Current
Stock Availability
12 publicly available
Gene Snapshot
Contributions welcome
Other Summaries
Key Links
Genomic Location
Cytogenetic map
Sequence location
2L:3,662,745..3,692,114 [+]
Recombination map

2-10

RefSeq locus
NT_033779 REGION:3662745..3692114
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 (4 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 DNA-binding transcription factor activity, RNA polymerase II-specific
inferred from biological aspect of ancestor with PANTHER:PTN004692309
(assigned by GO_Central )
(Gaudet et al., 2011)
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding
inferred from biological aspect of ancestor with PANTHER:PTN004692309
(assigned by GO_Central )
(Gaudet et al., 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 regulation of transcription by RNA polymerase II
inferred from biological aspect of ancestor with PANTHER:PTN004692309
(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 chromatin
inferred from biological aspect of ancestor with PANTHER:PTN004692309
(assigned by GO_Central )
(Gaudet et al., 2011)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
PAIRED-LIKE HOMEOBOX TRANSCRIPTION FACTORS -
Paired-like (PRD-like) homeobox transcription factors are sequence-specific DNA binding proteins that regulate transcription. PRD-like transcription factors lack a paired domain but possess a homeodomain characteristic of the paired homeobox transcription factors. Some members also possess an Engrailed Homology 1 (EH1) and/or an OAR motif near the C-terminus. (Adapted from FBrf0232555 and FBrf0106517).
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\Drgx 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 5.49

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Drgx-RE
FBtr0302391
NM_001103605
2612
587
Drgx-RF
FBtr0339572
NM_001298663
2989
587
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
Drgx-PE
FBpp0291586
61.5
587
7.41
NP_001097075
ABV53614
Drgx-PF
FBpp0308648
61.5
587
7.41
NP_001285592
AHN54107
Polypeptides with Identical Sequences

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

587 aa isoforms: Drgx-PE, Drgx-PF
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\Drgx 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)
embryonic stage 4 -- 6
organism | faint | ubiquitous
(Fisher et al., 2012)
embryonic stage 11 -- 12
central brain primordium
(Fisher et al., 2012)
ventral nerve cord primordium
(Fisher et al., 2012)
embryonic stage 13 -- 16
embryonic brain
(Fisher et al., 2012)
ventral nerve cord
(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\Drgx 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, and Transgenic Constructs
Classical and Insertion Alleles ( 7 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Drgx
Transgenic constructs containing regulatory region of Drgx
Deletions and Duplications ( 1 )
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (15)
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\DRGX
7 of 15
Yes
Yes
Hsap\ALX3
3 of 15
No
No
Hsap\PHOX2A
3 of 15
No
No
Hsap\PHOX2B
3 of 15
No
No
Hsap\ALX1
2 of 15
No
No
Hsap\ALX4
2 of 15
No
No
Hsap\ARX
2 of 15
No
No
Hsap\ESX1
1 of 15
No
No
Hsap\IRX5
1 of 15
No
No
Hsap\ISX
1 of 15
No
No
Hsap\RAX2
1 of 15
No
No
Hsap\RAX
1 of 15
No
No
1  
Hsap\RHOXF1
1 of 15
No
Yes
Hsap\RHOXF2B
1 of 15
No
No
Hsap\RHOXF2
1 of 15
No
No
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (16)
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\Prrxl1
7 of 15
Yes
Yes
Mmus\Alx3
3 of 15
No
Yes
Mmus\Phox2a
3 of 15
No
No
Mmus\Phox2b
3 of 15
No
No
Mmus\Arx
2 of 15
No
No
Mmus\Alx1
1 of 15
No
No
Mmus\Alx4
1 of 15
No
No
Mmus\Esx1
1 of 15
No
No
Mmus\Isx
1 of 15
No
No
Mmus\Ppp1r21
1 of 15
No
No
Mmus\Rax
1 of 15
No
No
Mmus\Rhox5
1 of 15
No
Yes
Mmus\Rhox10
1 of 15
No
Yes
Mmus\Rhox11
1 of 15
No
Yes
Mmus\Rhox12
1 of 15
No
Yes
Mmus\Rhox13
1 of 15
No
Yes
Rattus norvegicus (Norway rat) (14)
Rnor\Drgx
6 of 13
Yes
Yes
Rnor\Alx1
2 of 13
No
No
Rnor\Alx3
2 of 13
No
Yes
Rnor\Alx4
2 of 13
No
No
Rnor\Arx
2 of 13
No
No
Rnor\Phox2a
2 of 13
No
No
Rnor\Arrb1
1 of 13
No
No
Rnor\Esx1
1 of 13
No
Yes
Rnor\Isx
1 of 13
No
Yes
Rnor\Phox2b
1 of 13
No
No
Rnor\Rhox10
1 of 13
No
Yes
Rnor\Rhox11
1 of 13
No
No
Rnor\Rhox12
1 of 13
No
Yes
Rnor\Rhox13
1 of 13
No
Yes
Xenopus tropicalis (Western clawed frog) (9)
Xtro\drgx
5 of 12
Yes
Yes
Xtro\alx1
2 of 12
No
No
Xtro\arx
2 of 12
No
No
Xtro\phox2a
2 of 12
No
No
Xtro\phox2b
2 of 12
No
No
Xtro\alx4
1 of 12
No
No
Xtro\rax2
1 of 12
No
Yes
Xtro\rax
1 of 12
No
No
Xtro\sebox
1 of 12
No
Yes
Danio rerio (Zebrafish) (17)
Drer\drgx
7 of 15
Yes
Yes
Drer\alx3
3 of 15
No
Yes
Drer\phox2a
3 of 15
No
No
Drer\alx1
2 of 15
No
No
Drer\alx4a
2 of 15
No
No
Drer\alx4b
2 of 15
No
Yes
Drer\arxa
2 of 15
No
No
Drer\arxb
2 of 15
No
No
Drer\phox2bb
2 of 15
No
No
Drer\dharma
1 of 15
No
No
Drer\phox2ba
1 of 15
No
No
Drer\prop1
1 of 15
No
Yes
Drer\rx1
1 of 15
No
No
Drer\rx2
1 of 15
No
No
Drer\rx3
1 of 15
No
No
Drer\sebox
1 of 15
No
Yes
Drer\si:dkey-43p13.5
1 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (8)
Cele\ceh-8
3 of 15
Yes
No
Cele\ceh-17
2 of 15
No
No
Cele\alr-1
1 of 15
No
No
Cele\ceh-45
1 of 15
No
No
Cele\ceh-53
1 of 15
No
No
Cele\ceh-54
1 of 15
No
No
Cele\lim-7
1 of 15
No
No
Cele\unc-42
1 of 15
No
No
Arabidopsis thaliana (thale-cress) (5)
Atha\HB-7
2 of 9
Yes
Yes
Atha\AtHB23
1 of 9
No
No
Atha\HB-1
1 of 9
No
No
Atha\HB-12
1 of 9
No
Yes
Atha\HB17
1 of 9
No
No
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) ( EOG09190BMN )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00000158
Drosophila simulans
Dsim\GD23246
Drosophila sechellia
Dsec\GM18425
Drosophila erecta
Dere\GG24957
Drosophila yakuba
Dyak\GE18248
Drosophila ananassae
Dana\GF15246
Drosophila pseudoobscura pseudoobscura
Dpse\GA25749
Drosophila persimilis
Dper\GL18665
Drosophila willistoni
Dwil\GK14643
Drosophila virilis
Dvir\GJ21114
Drosophila virilis
Dvir\GJ11355
Drosophila mojavensis
Dmoj\GI23866
Drosophila grimshawi
Dgri\GH13699
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091508R1 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17011055
Glossina morsitans
Tsetse fly
Gmor\GMOY007983
Glossina morsitans
Tsetse fly
Gmor\GMOY004722
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_09643
Mayetiola destructor
Hessian fly
Mdes\Mdes018808
Mayetiola destructor
Hessian fly
Mdes\Mdes015792
Mayetiola destructor
Hessian fly
Mdes\Mdes015806
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL018154
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL015234
Anopheles darlingi
American malaria mosquito
Adar\ADAC005280
Anopheles gambiae
Malaria mosquito
Agam\AGAP008868
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ005281
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0PED )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA007471
Danaus plexippus
Monarch butterfly
Dple\DPOGS204692-PA
Apis florea
Little honeybee
Aflo\4305474628
Apis mellifera
Western honey bee
Amel\GB51950
Apis mellifera
Western honey bee
Amel\GB49866
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP24853
Bombus terrestris
Buff-tailed bumblebee
Bter\15210013
Linepithema humile
Argentine ant
Lhum\LH17469
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:001860
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG004827
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_05536
Tribolium castaneum
Red flour beetle
Tcas\TC005600
Pediculus humanus
Human body louse
Phum\PHUM189970
Rhodnius prolixus
Kissing bug
Rpro\RPRC006801
Cimex lectularius
Bed bug
Clec\CLEC001950
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI007256
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_13784
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0PPC )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR003736
Ixodes scapularis
Black-legged tick
Isca\ISCW021207
Tetranychus urticae
Two-spotted spider mite
Turt\tetur14g00760
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0YX9 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Arxl
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Phox2
Ciona intestinalis
Vase tunicate
Cint\Phox2
Gallus gallus
Domestic chicken
Ggal\ENSGALG00000026017
Gallus gallus
Domestic chicken
Ggal\PHOX2B
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (11)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
al
2 of 10
hbn
2 of 10
PHDP
2 of 10
Pph13
2 of 10
Rx
2 of 10
CG9876
1 of 10
CG11294
1 of 10
CG32532
1 of 10
Gsc
1 of 10
repo
1 of 10
Vsx2
1 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?
    DRGX; dorsal root ganglia homeobox
    7 of 15
    606701
        ALX3; ALX homeobox 3
        3 of 15
        606014
          PHOX2A; paired like homeobox 2A
          3 of 15
          602753
          PHOX2B; paired like homeobox 2B
          3 of 15
          603851
          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
          Drgx - REPTOR-BP
          two hybrid array
          (Shokri et al., 2019)
          Drgx - abd-A
          bimolecular fluorescence complementation, fluorescence microscopy
          (Bischof et al., 2018)
          Drgx - l(1)sc
          two hybrid array
          (Shokri et al., 2019)
          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
          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.
          Pathways
          Signaling Pathways (FlyBase)
          Metabolic Pathways
          External Data
          Linkouts
          Genomic Location and Detailed Mapping Data
          Chromosome (arm)
          2L
          Recombination map

          2-10

          Cytogenetic map
          24A5-24B1
          Sequence location
          2L:3,662,745..3,692,114 [+]
          FlyBase Computed Cytological Location
          Cytogenetic map
          Evidence for location
          24A5-24B1
          Experimentally Determined Cytological Location
          Cytogenetic map
          Notes
          References
          Experimentally Determined Recombination Data
          Location

          2-10

          (FlyBase, 2016)

          2-8.9

          (Comeron et al., 2012)
          Left of (cM)
          Right of (cM)
          Notes
          Stocks and Reagents
          Stocks (12)
          Genomic Clones (18)
           

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

          cDNA Clones (13)
           

          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: Drgx CG34340

              (Javeed et al., 2015)
              Source for database merge of

              Source for merge of: CG10017 CG2808

              (FlyBase Genome Annotators, 2007)
              Additional comments

              Annotations CG10017 and CG2808 merged as CG34340 in release 5.2 of the genome annotation.

              (FlyBase Genome Annotators, 2007)
              Other Comments

              dsRNA has been made from templates generated with primers directed against this gene. RNAi of CG2808 results in reduced arborization of ddaD and ddaE neurons, defects in muscle and defects in dendrite morphogenesis.

              (Parrish et al., 2006)
              Origin and Etymology
              Discoverer
              Etymology
              Identification
              External Crossreferences and Linkouts ( 29 )
              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
              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.
              Synonyms and Secondary IDs (5)
              Datasets (0)
              Study focus (0)
              Experimental Role
              Project
              Project Type
              Title
              References (43)