FB2020_06, released Dec 22, 2020

Gene: Dmel\HLH54F

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General Information
Symbol
Dmel\HLH54F
Species
D. melanogaster
Name
HLH54F
Annotation Symbol
CG5005
Feature Type
protein_coding_gene
FlyBase ID
FBgn0022740
Gene Model Status
Current
Stock Availability
11 publicly available
Gene Snapshot
HLH54F (HLH54F) encodes a bHLH transcription factor that regulates caudal visceral mesoderm development. [Date last reviewed: 2019-03-07]
Other Summaries
Also Known As

bHLH54F

Key Links
Genomic Location
Cytogenetic map
54E8-54E8
Sequence location
2R:17,757,405..17,760,517 [+]
Recombination map

2-84

RefSeq locus
NT_033778 REGION:17757405..17760517
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 (9 terms)
Molecular Function (3 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
enables protein heterodimerization activity
inferred from physical interaction with FLYBASE:da; FB:FBgn0267821
(Georgias et al., 1997)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
enables DNA-binding transcription factor activity, RNA polymerase II-specific
inferred from sequence or structural similarity with MGI:MGI:1202715
(Ismat et al., 2010)
inferred from biological aspect of ancestor with PANTHER:PTN002360678
(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:PTN002360678
(assigned by GO_Central )
(Gaudet et al., 2011)
Biological Process (4 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
involved_in positive regulation of transcription by RNA polymerase II
inferred from mutant phenotype
(Ismat et al., 2010)
involved_in visceral muscle development
inferred from mutant phenotype
(Ismat et al., 2010)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
involved_in developmental process
inferred from biological aspect of ancestor with PANTHER:PTN002360678
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in regulation of transcription by RNA polymerase II
inferred from biological aspect of ancestor with PANTHER:PTN002360678
(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
located_in chromatin
inferred from biological aspect of ancestor with PANTHER:PTN002360678
(assigned by GO_Central )
(Gaudet et al., 2011)
located_in nucleus
inferred from sequence or structural similarity with MGI:MGI:1202715
(Ismat et al., 2010)
inferred from sequence or structural similarity with MGI:MGI:1333884
(Ismat et al., 2010)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTORS -
Basic helix-loop-helix (bHLH) transcription factors are sequence-specific DNA-binding proteins that regulate transcription. They are characterized by a 60 amino acid region comprising a basic DNA binding domain followed by a HLH motif formed from two amphipathic α-helices connected by a loop. bHLH transcription factors form homo- and hetero-dimeric complexes, which bind to a E box consensus sequence. (Adapted from PMID:15186484).
Summary (Interactive Fly)

bHLH transcription factor - earliest specific regulator of caudal visceral mesoderm development

Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\HLH54F 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

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
HLH54F-RA
FBtr0089547
NM_057954
1078
242
Additional Transcript Data and Comments
Reported size (kB)

1.3 (northern blot)

(Georgias et al., 1997)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
HLH54F-PA
FBpp0088516
26.9
242
7.69
NP_477302
AAF57795
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)

242 (aa)

(Georgias et al., 1997)
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\HLH54F 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
visceral mesoderm | precursor
(Georgias et al., 1997)
embryonic stage 13
longitudinal visceral muscle primordium
(Zaffran et al., 2001)
embryonic stage 1 -- 3
organism | faint | ubiquitous

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4 -- 6
mesoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
organism | anterior
(Fisher et al., 2012)
organism | posterior
(Fisher et al., 2012)
organism | segmentally repeated
(Fisher et al., 2012)
trunk mesoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
embryonic stage 7 -- 8
organism | posterior
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
embryonic stage 9 -- 10
trunk mesoderm
(Fisher et al., 2012)
embryonic stage 11 -- 12
dorsal pharyngeal muscle primordium
(Fisher et al., 2012)
longitudinal visceral muscle primordium
(Fisher et al., 2012)
organism | segmentally repeated
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
embryonic stage 13 -- 16
dorsal pharyngeal muscle
(Fisher et al., 2012)
longitudinal visceral muscle fiber
(Fisher et al., 2012)
embryonic stage 16
prothoracic gland
(Namiki et al., 2009)
embryonic stage 15 -- 16
ring gland
(Namiki et al., 2009)
embryonic stage 5
organism | posterior
(Namiki et al., 2009)
embryonic stage 8 -- 10
thoracic segment | restricted
(Namiki et al., 2009)
abdominal segment | restricted
(Namiki et al., 2009)
embryonic stage 14 -- 16
embryonic/larval midgut
(Namiki et al., 2009)
embryonic stage 11 -- 13
visceral muscle primordium
(Reim et al., 2012)
longitudinal visceral muscle primordium
(Reim et al., 2012)
northern blot
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage
(Georgias et al., 1997)
somatic mesoderm | restricted
(Georgias et al., 1997)
visceral mesoderm
(Georgias et al., 1997)
Additional Descriptive Data

HLH54F transcripts are detected only in embryos on northern blots. They are first detected by in situ hybridization at the cellular blastoderm stage at the posterior end of the mesoderm anlage. After gastrulation, these cells move out of the mesoderm layer and enter the space between the germ band and the posterior midgut anlage. They then separate in to two lateral populations. By the end of germ band retraction, they are distributed throughout the trunk region of the embryo. They begin to ensheath the midgut after it fuses. These cells are thought to be visceral mesoderm. 11 groups of cells within the somatic mesoderm also express HLH54F transcripts. They may correspond to clusters from which muscle progenitors segregate.

(Georgias et al., 1997)
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\HLH54F 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
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 5 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 14 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of HLH54F
Transgenic constructs containing regulatory region of HLH54F
Deletions and Duplications ( 1 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal
partially lethal - majority die (with Df(2R)02B10Y-12)
partially lethal - majority die (with Df(2R)14H10W-21)
partially lethal - majority die (with HLH54FS0323)
partially lethal - majority die (with HLH54FS1750)
partially lethal - majority die (with HLH54FΔ598)
viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
viable, with Scer\GAL4Mef2.PR
viable, with Scer\GAL4pnr-MD237
viable, with Scer\GAL4tin.CΔ4
Other Phenotypes
Allele
increased cell death
visible, with Scer\GAL4Bx-MS1096
visible, with Scer\GAL4pnr-MD237
visible | cold sensitive, with Scer\GAL4Bx-MS1096
Phenotype manifest in
Allele
cardioblast, with Scer\GAL4how-24B, Scer\GAL4twi.2PE
embryonic/larval midgut muscle
embryonic/larval midgut muscle, with Scer\GAL4how-24B, Scer\GAL4twi.2PE
embryonic/larval midgut muscle (with HLH54FS1750)
embryonic/larval midgut muscle (with HLH54FΔ598)
embryonic somatic muscle, with Scer\GAL4how-24B, Scer\GAL4twi.2PE
longitudinal muscle
longitudinal muscle, with Scer\GAL4d.HLH54F
longitudinal muscle (with HLH54FS1750)
longitudinal muscle (with HLH54FΔ598)
longitudinal visceral muscle fiber
longitudinal visceral muscle fiber, with Scer\GAL4d.HLH54F
longitudinal visceral muscle fiber (with HLH54FS1750)
longitudinal visceral muscle fiber (with HLH54FΔ598)
longitudinal visceral muscle primordium
longitudinal visceral muscle primordium, with Scer\GAL4d.HLH54F
longitudinal visceral muscle primordium (with HLH54FS1750)
longitudinal visceral muscle primordium (with HLH54FΔ598)
mesothoracic tergum, with Scer\GAL4pnr-MD237
wing, with Scer\GAL4Bx-MS1096
wing | cold sensitive, with Scer\GAL4Bx-MS1096
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (27)
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\TCF21
7 of 15
Yes
Yes
Hsap\MSC
6 of 15
No
Yes
Hsap\FERD3L
2 of 15
No
No
1  
Hsap\FIGLA
2 of 15
No
Yes
Hsap\HAND1
2 of 15
No
No
Hsap\HAND2
2 of 15
No
No
1  
Hsap\SCX
2 of 15
No
No
Hsap\TCF15
2 of 15
No
No
Hsap\TCF23
2 of 15
No
Yes
Hsap\TCF24
2 of 15
No
Yes
Hsap\ASCL1
1 of 15
No
No
2  
Hsap\ASCL2
1 of 15
No
No
Hsap\ASCL3
1 of 15
No
No
Hsap\ASCL4
1 of 15
No
No
1  
Hsap\ATOH1
1 of 15
No
No
1  
Hsap\BHLHA9
1 of 15
No
No
Hsap\LYL1
1 of 15
No
No
Hsap\MESP1
1 of 15
No
No
Hsap\MESP2
1 of 15
No
No
Hsap\MSGN1
1 of 15
No
No
Hsap\NHLH1
1 of 15
No
No
Hsap\NHLH2
1 of 15
No
No
1  
Hsap\PTF1A
1 of 15
No
No
Hsap\TAL1
1 of 15
No
No
1  
Hsap\TAL2
1 of 15
No
No
1  
Hsap\TWIST1
1 of 15
No
No
1  
Hsap\TWIST2
1 of 15
No
No
1  
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (28)
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\Tcf21
7 of 15
Yes
Yes
Mmus\Msc
6 of 15
No
Yes
Mmus\Ferd3l
2 of 15
No
No
Mmus\Figla
2 of 15
No
Yes
Mmus\Hand1
2 of 15
No
No
Mmus\Hand2
2 of 15
No
No
Mmus\Scx
2 of 15
No
No
Mmus\Tcf15
2 of 15
No
No
Mmus\Tcf23
2 of 15
No
Yes
Mmus\Tcf24
2 of 15
No
Yes
Mmus\Ascl1
1 of 15
No
No
Mmus\Ascl2
1 of 15
No
No
Mmus\Ascl3
1 of 15
No
No
Mmus\Ascl4
1 of 15
No
No
Mmus\Ascl5
1 of 15
No
No
Mmus\Atoh1
1 of 15
No
No
3  
Mmus\Bhlha9
1 of 15
No
No
Mmus\Lyl1
1 of 15
No
No
Mmus\Mesp1
1 of 15
No
No
Mmus\Mesp2
1 of 15
No
No
Mmus\Msgn1
1 of 15
No
No
Mmus\Nhlh1
1 of 15
No
No
Mmus\Nhlh2
1 of 15
No
No
Mmus\Ptf1a
1 of 15
No
No
Mmus\Tal1
1 of 15
No
No
Mmus\Tal2
1 of 15
No
No
Mmus\Twist1
1 of 15
No
No
Mmus\Twist2
1 of 15
No
No
Rattus norvegicus (Norway rat) (26)
Rnor\Tcf21
6 of 13
Yes
Yes
Rnor\Msc
5 of 13
No
Yes
Rnor\Ferd3l
2 of 13
No
No
Rnor\Figla
2 of 13
No
Yes
Rnor\Hand1
2 of 13
No
No
Rnor\Scx
2 of 13
No
No
Rnor\Tcf15
2 of 13
No
No
Rnor\Tcf23
2 of 13
No
Yes
Rnor\Ascl1
1 of 13
No
No
Rnor\Ascl2
1 of 13
No
No
Rnor\Ascl4
1 of 13
No
No
Rnor\Ascl5
1 of 13
No
No
Rnor\Atoh1
1 of 13
No
No
Rnor\Bhlha9
1 of 13
No
Yes
Rnor\Lyl1
1 of 13
No
No
Rnor\Mesp1
1 of 13
No
No
Rnor\Mesp2
1 of 13
No
No
Rnor\Msgn1
1 of 13
No
No
Rnor\Nhlh1
1 of 13
No
No
Rnor\Ptf1a
1 of 13
No
No
Rnor\Tal1
1 of 13
No
No
Rnor\Tal2
1 of 13
No
No
Rnor\Tcf24
1 of 13
No
Yes
Rnor\Tmem9b
1 of 13
No
No
Rnor\Twist1
1 of 13
No
No
Rnor\Twist2
1 of 13
No
No
Xenopus tropicalis (Western clawed frog) (19)
Xtro\msc
6 of 12
Yes
Yes
Xtro\tcf21
6 of 12
Yes
Yes
Xtro\figla
2 of 12
No
Yes
Xtro\hand1
2 of 12
No
No
Xtro\hand2
2 of 12
No
No
Xtro\scx
2 of 12
No
No
Xtro\tcf15
2 of 12
No
No
Xtro\ascl2
1 of 12
No
No
Xtro\ascl3
1 of 12
No
No
Xtro\lyl1
1 of 12
No
No
Xtro\mespa
1 of 12
No
No
Xtro\mespb
1 of 12
No
No
Xtro\msgn1
1 of 12
No
No
Xtro\nhlh1
1 of 12
No
No
Xtro\ptf1a
1 of 12
No
No
Xtro\tal1
1 of 12
No
No
Xtro\tal2
1 of 12
No
No
Xtro\twist1
1 of 12
No
No
Xtro\twist2
1 of 12
No
No
Danio rerio (Zebrafish) (27)
Drer\msc
7 of 15
Yes
Yes
Drer\tcf21
7 of 15
Yes
Yes
Drer\figla
2 of 15
No
Yes
Drer\hand2
2 of 15
No
No
Drer\scxa
2 of 15
No
No
Drer\scxb
2 of 15
No
No
Drer\si:ch211-246m6.4
2 of 15
No
No
Drer\tcf15
2 of 15
No
No
Drer\tcf23
2 of 15
No
Yes
Drer\ascl1a
1 of 15
No
No
Drer\atoh1a
1 of 15
No
No
Drer\atoh1b
1 of 15
No
No
Drer\bhlha9
1 of 15
No
Yes
Drer\lyl1
1 of 15
No
No
Drer\mespaa
1 of 15
No
No
Drer\mespab
1 of 15
No
No
Drer\mespba
1 of 15
No
No
Drer\mespbb
1 of 15
No
No
Drer\msgn1
1 of 15
No
No
Drer\nhlh2
1 of 15
No
No
Drer\ptf1a
1 of 15
No
No
Drer\tal1
1 of 15
No
No
Drer\tal2
1 of 15
No
No
Drer\twist1a
1 of 15
No
No
Drer\twist1b
1 of 15
No
No
Drer\twist2
1 of 15
No
No
Drer\twist3
1 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (10)
Cele\hlh-10
4 of 15
Yes
Yes
Cele\cnd-1
1 of 15
No
No
Cele\hlh-3
1 of 15
No
No
Cele\hlh-4
1 of 15
No
No
Cele\hlh-6
1 of 15
No
No
Cele\hlh-12
1 of 15
No
Yes
Cele\hlh-13
1 of 15
No
No
Cele\hlh-14
1 of 15
No
No
Cele\hlh-15
1 of 15
No
No
Cele\ngn-1
1 of 15
No
No
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) ( EOG09190H9L )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00003096
Drosophila simulans
Dsim\GD11315
Drosophila sechellia
Dsec\GM21822
Drosophila erecta
Dere\GG21821
Drosophila yakuba
Dyak\GE11898
Drosophila ananassae
Dana\GF11672
Drosophila pseudoobscura pseudoobscura
Dpse\GA18588
Drosophila persimilis
Dper\GL17221
Drosophila willistoni
Dwil\GK22890
Drosophila virilis
Dvir\GJ22243
Drosophila mojavensis
Dmoj\GI19113
Drosophila grimshawi
Dgri\GH22024
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG09150C9B )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17021754
Glossina morsitans
Tsetse fly
Gmor\GMOY010775
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_11550
Mayetiola destructor
Hessian fly
Mdes\Mdes008148
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0SKI )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA012033
Danaus plexippus
Monarch butterfly
Dple\DPOGS207303-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL007364
Apis florea
Little honeybee
Aflo\3692063284
Apis mellifera
Western honey bee
Amel\GB42177
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP14678
Bombus terrestris
Buff-tailed bumblebee
Bter\15209781
Linepithema humile
Argentine ant
Lhum\LH22462
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:00195e
Tribolium castaneum
Red flour beetle
Tcas\TC002349
Pediculus humanus
Human body louse
Phum\PHUM294350
Cimex lectularius
Bed bug
Clec\CLEC012607
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI002601
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_12128
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0QTP )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR006929
Ixodes scapularis
Black-legged tick
Isca\ISCW019706
Stegodyphus mimosarum
African social velvet spider
Smim\KFM56721.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur13g02170
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_37461
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0N6P )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Myor2
Gallus gallus
Domestic chicken
Ggal\ENSGALG00000029024
Gallus gallus
Domestic chicken
Ggal\MSC
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (12)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
CG33557
3 of 10
Fer1
3 of 10
Fer2
3 of 10
Fer3
3 of 10
Hand
3 of 10
twi
2 of 10
ac
1 of 10
ase
1 of 10
HLH3B
1 of 10
HLH4C
1 of 10
l(1)sc
1 of 10
sc
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?
    TCF21; transcription factor 21
    7 of 15
    603306
        MSC; musculin
        6 of 15
        603628
            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
            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
            HLH54F
            enhanceable
            da
            (Ismat et al., 2010)
            Starting gene(s)
            Interaction type
            Interacting gene(s)
            Reference
            da
            enhanceable
            HLH54F
            (Ismat et al., 2010)
            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
            Genomic Location and Detailed Mapping Data
            Chromosome (arm)
            2R
            Recombination map

            2-84

            Cytogenetic map
            54E8-54E8
            Sequence location
            2R:17,757,405..17,760,517 [+]
            FlyBase Computed Cytological Location
            Cytogenetic map
            Evidence for location
            54E8-54E8
            Limits computationally determined from genome sequence between P{EP}subEP616 and P{PZ}grh06850&P{lacW}olf186-Fk11505
            Experimentally Determined Cytological Location
            Cytogenetic map
            Notes
            References
            54F-54F
            (Hinz, 1997.9.9)
            54F-55A
            (determined by in situ hybridisation)
            (Georgias et al., 1997)
            Experimentally Determined Recombination Data
            Location

            2-84

            (FlyBase, 2016)

            2-86.8

            (Comeron et al., 2012)
            Left of (cM)
            Right of (cM)
            Notes
            Stocks and Reagents
            Stocks (11)
            Genomic Clones (15)
             

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

            cDNA Clones (34)
             

            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 database merge of
                Additional comments
                Other Comments

                HLH54F is required for the specification of the caudal viscerl mesoderm. The development of the longitudinal visceral muscles is critically dependent on HLH54F function.

                (Ismat et al., 2010)

                HLH54F is required not only for the survival of the caudal visceral mesoderm, but also for the initia specification and, in this context, for the correct migratory properties of these cells.

                (Ismat et al., 2010)

                HLH54F is required for the specification and migration of longitudinal gut muscle founders from the caudal mesoderm.

                (Ismat et al., 2010)

                HLH54F has been cloned and characterised. Isolated using the yeast two-hybrid system in a screen for proteins that interact with da protein.

                (Georgias et al., 1997)
                Origin and Etymology
                Discoverer
                Etymology
                Identification
                External Crossreferences and Linkouts ( 30 )
                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.
                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.
                DPiM - Drosophila Protein interaction map
                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
                Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
                InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
                MIST (protein-protein) - An integrated Molecular Interaction Database
                Synonyms and Secondary IDs (7)
                Datasets (0)
                Study focus (0)
                Experimental Role
                Project
                Project Type
                Title
                References (67)