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Gene Dmel\HLH54F

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	3 publicly available
Also Known As	bHLH54F
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	54E8-54E8	Sequence location	2R:13,644,922..13,648,022 [+]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents modENCODE GBrowse	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene HLH54F is referred to in FlyBase by the symbol Dmel\HLH54F (CG5005, FBgn0022740). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: protein heterodimerization activity. There is experimental evidence that it is involved in the biological process: visceral muscle development; positive regulation of transcription from RNA polymerase II promoter. 9 alleles are reported. The phenotypes of these alleles are annotated with: midgut muscle; embryonic somatic muscle; longitudinal visceral muscle primordium; mesothoracic tergum; longitudinal muscle; cardioblast; longitudinal visceral muscle fiber. It has one annotated transcript and one annotated polypeptide. Protein features are: Helix-loop-helix DNA-binding. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of extremely low expression. Peak expression observed within 00-18 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: No expression detected in any larval or adult organs/tissues. Comments on Affy2 ProbeSet: ProbeSet 1623050_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of HLH54F. Gene sequence location is 2R:13644922..13648022.
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2011_10
FB2012_01	Sequence features BKN23620 HFA07438 Controlled Vocabulary Terms sequence-specific DNA binding RNA polymerase II transcription factor activity positive regulation of transcription from RNA polymerase II promoter protein heterodimerization activity
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
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
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\HLH54F for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) HLH54F-RA FBtr0089547  NM_057954   1066   242
Additional Transcript Data & 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 protein HLH54F-PA   FBpp0088516   26.9   242   7.69     NP_477302   AAF57795
Additional Polypeptide Data & Comments
Reported size (kDa)	242 (aa) (Georgias et al., 1997)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Helix-loop-helix DNA-binding (IPR011598)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE013599 AAF57795   AC004288   AJ000729 CAA04262   BT028823   BT028855   CO310888   DN154340   EC076013   EC225166   GH943352   GH945214   GH946645   GH946761   GH947158   GH947685   GH948860   GH949364   GH949453   GH952499   GH953929   GH958290   GH959657   GH959911   GH961967   GH962943   GH963063   GH964177   GH964508   GH967183   GH973488   GH973791   GH976009   GH978086   GH980646   GH981293   GH982517   GH983892   GH984202
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q0IGU7 O18374 Q0IGR5
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
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) 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
Notes
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
High-Throughput Expression Data
or
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes. modENCODE Temporal Expression Data for FBgn0022740    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0022740 Very low expression bin max Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of extremely low expression. Peak expression observed within 00-18 hour embryonic stages. [download data (TSV)] Guide to modENCODE expression level colors   No expression (0 - 0)   Extremely low expression (1 - 10)   Very low expression (11 - 100)   Low expression (101 - 400)   Moderate expression (401 - 1400)   Moderately high expression (1401 - 4000)   High expression (4001 - 10000)   Very high expression (10001 - 100000)   Extremely high expression (100001 - 2000000) Linear, scaled to maximum FBgn0022740 expression level Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    202 embryo 04-06hr    458 embryo 06-08hr    1121 embryo 08-10hr    1242 embryo 10-12hr    1223 embryo 12-14hr    1017 embryo 14-16hr    696 embryo 16-18hr    553 embryo 18-20hr    289 embryo 20-22hr    227 embryo 22-24hr    264 larva L1    140 larva L2    71 larva L3 12hr old    32 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    33 larva L3 puffstage 7-9    43 white prepupae new    42 white prepupae 12hr    65 white prepupae 24hr    101 pupae 2d postWPP    97 pupae 3d postWPP    73 pupae 4d postWPP    38 adult male 01day    52 adult male 05day    75 adult male 30day    75 adult female 01day    13 adult female 05day    6 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr  (202) embryo 04-06hr  (458) embryo 06-08hr  (1121) embryo 08-10hr  (1242) embryo 10-12hr  (1223) embryo 12-14hr  (1017) embryo 14-16hr  (696) embryo 16-18hr  (553) embryo 18-20hr  (289) embryo 20-22hr  (227) embryo 22-24hr  (264) larva L1  (140) larva L2    71 larva L3 12hr old    32 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    33 larva L3 puffstage 7-9    43 white prepupae new    42 white prepupae 12hr    65 white prepupae 24hr  101 pupae 2d postWPP    97 pupae 3d postWPP    73 pupae 4d postWPP    38 adult male 01day    52 adult male 05day    75 adult male 30day    75 adult female 01day    13 adult female 05day    6 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    202 embryo 04-06hr    458 embryo 06-08hr    1121 embryo 08-10hr    1242 embryo 10-12hr    1223 embryo 12-14hr    1017 embryo 14-16hr    696 embryo 16-18hr    553 embryo 18-20hr    289 embryo 20-22hr    227 embryo 22-24hr    264 larva L1    140 larva L2    71 larva L3 12hr old    32 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    33 larva L3 puffstage 7-9    43 white prepupae new    42 white prepupae 12hr    65 white prepupae 24hr    101 pupae 2d postWPP    97 pupae 3d postWPP    73 pupae 4d postWPP    38 adult male 01day    52 adult male 05day    75 adult male 30day    75 adult female 01day    13 adult female 05day    6 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    202 embryo 04-06hr    458 embryo 06-08hr    1121 embryo 08-10hr    1242 embryo 10-12hr    1223 embryo 12-14hr    1017 embryo 14-16hr    696 embryo 16-18hr    553 embryo 18-20hr    289 embryo 20-22hr    227 embryo 22-24hr    264 larva L1    140 larva L2    71 larva L3 12hr old    32 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    33 larva L3 puffstage 7-9    43 white prepupae new    42 white prepupae 12hr    65 white prepupae 24hr    101 pupae 2d postWPP    97 pupae 3d postWPP    73 pupae 4d postWPP    38 adult male 01day    52 adult male 05day    75 adult male 30day    75 adult female 01day    13 adult female 05day    6 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    202 embryo 04-06hr    458 embryo 06-08hr    1121 embryo 08-10hr    1242 embryo 10-12hr    1223 embryo 12-14hr    1017 embryo 14-16hr    696 embryo 16-18hr    553 embryo 18-20hr    289 embryo 20-22hr    227 embryo 22-24hr    264 larva L1    140 larva L2    71 larva L3 12hr old    32 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    33 larva L3 puffstage 7-9    43 white prepupae new    42 white prepupae 12hr    65 white prepupae 24hr    101 pupae 2d postWPP    97 pupae 3d postWPP    73 pupae 4d postWPP    38 adult male 01day    52 adult male 05day    75 adult male 30day    75 adult female 01day    13 adult female 05day    6 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0022740 expression level Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    202 embryo 04-06hr    458 embryo 06-08hr    1121 embryo 08-10hr    1242 embryo 10-12hr    1223 embryo 12-14hr    1017 embryo 14-16hr    696 embryo 16-18hr    553 embryo 18-20hr    289 embryo 20-22hr    227 embryo 22-24hr    264 larva L1    140 larva L2    71 larva L3 12hr old    32 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    33 larva L3 puffstage 7-9    43 white prepupae new    42 white prepupae 12hr    65 white prepupae 24hr    101 pupae 2d postWPP    97 pupae 3d postWPP    73 pupae 4d postWPP    38 adult male 01day    52 adult male 05day    75 adult male 30day    75 adult female 01day    13 adult female 05day    6 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr  (202) embryo 04-06hr  (458) embryo 06-08hr  (1121) embryo 08-10hr  (1242) embryo 10-12hr  (1223) embryo 12-14hr  (1017) embryo 14-16hr  (696) embryo 16-18hr  (553) embryo 18-20hr  (289) embryo 20-22hr  (227) embryo 22-24hr  (264) larva L1  140 larva L2    71 larva L3 12hr old    32 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    33 larva L3 puffstage 7-9    43 white prepupae new    42 white prepupae 12hr    65 white prepupae 24hr  101 pupae 2d postWPP    97 pupae 3d postWPP    73 pupae 4d postWPP    38 adult male 01day    52 adult male 05day    75 adult male 30day    75 adult female 01day    13 adult female 05day    6 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    202 embryo 04-06hr    458 embryo 06-08hr    1121 embryo 08-10hr    1242 embryo 10-12hr    1223 embryo 12-14hr    1017 embryo 14-16hr    696 embryo 16-18hr    553 embryo 18-20hr    289 embryo 20-22hr    227 embryo 22-24hr    264 larva L1    140 larva L2    71 larva L3 12hr old    32 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    33 larva L3 puffstage 7-9    43 white prepupae new    42 white prepupae 12hr    65 white prepupae 24hr    101 pupae 2d postWPP    97 pupae 3d postWPP    73 pupae 4d postWPP    38 adult male 01day    52 adult male 05day    75 adult male 30day    75 adult female 01day    13 adult female 05day    6 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    202 embryo 04-06hr    458 embryo 06-08hr    1121 embryo 08-10hr    1242 embryo 10-12hr    1223 embryo 12-14hr    1017 embryo 14-16hr    696 embryo 16-18hr    553 embryo 18-20hr    289 embryo 20-22hr    227 embryo 22-24hr    264 larva L1    140 larva L2    71 larva L3 12hr old    32 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    33 larva L3 puffstage 7-9    43 white prepupae new    42 white prepupae 12hr    65 white prepupae 24hr    101 pupae 2d postWPP    97 pupae 3d postWPP    73 pupae 4d postWPP    38 adult male 01day    52 adult male 05day    75 adult male 30day    75 adult female 01day    13 adult female 05day    6 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    14 embryo 02-04hr    202 embryo 04-06hr    458 embryo 06-08hr    1121 embryo 08-10hr    1242 embryo 10-12hr    1223 embryo 12-14hr    1017 embryo 14-16hr    696 embryo 16-18hr    553 embryo 18-20hr    289 embryo 20-22hr    227 embryo 22-24hr    264 larva L1    140 larva L2    71 larva L3 12hr old    32 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    33 larva L3 puffstage 7-9    43 white prepupae new    42 white prepupae 12hr    65 white prepupae 24hr    101 pupae 2d postWPP    97 pupae 3d postWPP    73 pupae 4d postWPP    38 adult male 01day    52 adult male 05day    75 adult male 30day    75 adult female 01day    13 adult female 05day    6 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Developmental Stage   Expression Level embryo 00-02hr     embryo 02-04hr     embryo 04-06hr     embryo 06-08hr     embryo 08-10hr     embryo 10-12hr     embryo 12-14hr     embryo 14-16hr     embryo 16-18hr     embryo 18-20hr     embryo 20-22hr     embryo 22-24hr     larva L1     larva L2     larva L3 12hr old     larva L3 puffstage 1-2     larva L3 puffstage 3-6     larva L3 puffstage 7-9     white prepupae new     white prepupae 12hr     white prepupae 24hr     pupae 2d postWPP     pupae 3d postWPP     pupae 4d postWPP     adult male 01day     adult male 05day     adult male 30day     adult female 01day     adult female 05day     adult female 30day     FlyAtlas Anatomical Expression Data for FBgn0022740    Styles Linear Logarithmic Heatmap Back-to-back    Scales max expr for FBgn0022740 Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: No expression detected in any larval or adult organs/tissues. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (1000 - 25000) Linear, scaled to maximum FBgn0022740 expression level Tissue   Expression Level Larval Central Nervous System    0.975 Larval Midgut no informative data Larval Hindgut    3.6 Larval Malpighian Tubules    0.8 Larval Fat Body    2.5 Larval Salivary Gland    2.7 Larval Trachea    1.05 Larval Carcass    3.175 Adult Head    0.7 Adult Eye    2.025 Adult Brain    1.1 Adult Thoracic-Abdominal Ganglion    1.3 Adult Crop    2.2 Adult Midgut no informative data Adult Hindgut    8.9 Adult Malpighian Tubules    7 Adult Fat Body    1.5 Adult Salivary Gland    4.4 Adult Heart    1.125 Adult VirginFemale Spermatheca    2 Adult InseminatedFemale Spermatheca    3 Adult Ovary    3.5 Adult Testis no informative data Adult Male Accessory Gland    1 Adult Carcass    0.8 Expression Level Scale  None   Low  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    0.975 Larval Midgut no informative data Larval Hindgut    3.6 Larval Malpighian Tubules    0.8 Larval Fat Body    2.5 Larval Salivary Gland    2.7 Larval Trachea    1.05 Larval Carcass    3.175 Adult Head    0.7 Adult Eye    2.025 Adult Brain    1.1 Adult Thoracic-Abdominal Ganglion    1.3 Adult Crop    2.2 Adult Midgut no informative data Adult Hindgut    8.9 Adult Malpighian Tubules    7 Adult Fat Body    1.5 Adult Salivary Gland    4.4 Adult Heart    1.125 Adult VirginFemale Spermatheca    2 Adult InseminatedFemale Spermatheca    3 Adult Ovary    3.5 Adult Testis no informative data Adult Male Accessory Gland    1 Adult Carcass    0.8 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    0.975 Larval Midgut no informative data Larval Hindgut    3.6 Larval Malpighian Tubules    0.8 Larval Fat Body    2.5 Larval Salivary Gland    2.7 Larval Trachea    1.05 Larval Carcass    3.175 Adult Head    0.7 Adult Eye    2.025 Adult Brain    1.1 Adult Thoracic-Abdominal Ganglion    1.3 Adult Crop    2.2 Adult Midgut no informative data Adult Hindgut    8.9 Adult Malpighian Tubules    7 Adult Fat Body    1.5 Adult Salivary Gland    4.4 Adult Heart    1.125 Adult VirginFemale Spermatheca    2 Adult InseminatedFemale Spermatheca    3 Adult Ovary    3.5 Adult Testis no informative data Adult Male Accessory Gland    1 Adult Carcass    0.8 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    0.975 Larval Midgut no informative data Larval Hindgut    3.6 Larval Malpighian Tubules    0.8 Larval Fat Body    2.5 Larval Salivary Gland    2.7 Larval Trachea    1.05 Larval Carcass    3.175 Adult Head    0.7 Adult Eye    2.025 Adult Brain    1.1 Adult Thoracic-Abdominal Ganglion    1.3 Adult Crop    2.2 Adult Midgut no informative data Adult Hindgut    8.9 Adult Malpighian Tubules    7 Adult Fat Body    1.5 Adult Salivary Gland    4.4 Adult Heart    1.125 Adult VirginFemale Spermatheca    2 Adult InseminatedFemale Spermatheca    3 Adult Ovary    3.5 Adult Testis no informative data Adult Male Accessory Gland    1 Adult Carcass    0.8 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to maximum FBgn0022740 expression level Tissue   Expression Level Larval Central Nervous System    0.975 Larval Midgut no informative data Larval Hindgut    3.6 Larval Malpighian Tubules    0.8 Larval Fat Body    2.5 Larval Salivary Gland    2.7 Larval Trachea    1.05 Larval Carcass    3.175 Adult Head    0.7 Adult Eye    2.025 Adult Brain    1.1 Adult Thoracic-Abdominal Ganglion    1.3 Adult Crop    2.2 Adult Midgut no informative data Adult Hindgut    8.9 Adult Malpighian Tubules    7 Adult Fat Body    1.5 Adult Salivary Gland    4.4 Adult Heart    1.125 Adult VirginFemale Spermatheca    2 Adult InseminatedFemale Spermatheca    3 Adult Ovary    3.5 Adult Testis no informative data Adult Male Accessory Gland    1 Adult Carcass    0.8 Expression Level Scale  None   Low  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    0.975 Larval Midgut no informative data Larval Hindgut    3.6 Larval Malpighian Tubules    0.8 Larval Fat Body    2.5 Larval Salivary Gland    2.7 Larval Trachea    1.05 Larval Carcass    3.175 Adult Head    0.7 Adult Eye    2.025 Adult Brain    1.1 Adult Thoracic-Abdominal Ganglion    1.3 Adult Crop    2.2 Adult Midgut no informative data Adult Hindgut    8.9 Adult Malpighian Tubules    7 Adult Fat Body    1.5 Adult Salivary Gland    4.4 Adult Heart    1.125 Adult VirginFemale Spermatheca    2 Adult InseminatedFemale Spermatheca    3 Adult Ovary    3.5 Adult Testis no informative data Adult Male Accessory Gland    1 Adult Carcass    0.8 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    0.975 Larval Midgut no informative data Larval Hindgut    3.6 Larval Malpighian Tubules    0.8 Larval Fat Body    2.5 Larval Salivary Gland    2.7 Larval Trachea    1.05 Larval Carcass    3.175 Adult Head    0.7 Adult Eye    2.025 Adult Brain    1.1 Adult Thoracic-Abdominal Ganglion    1.3 Adult Crop    2.2 Adult Midgut no informative data Adult Hindgut    8.9 Adult Malpighian Tubules    7 Adult Fat Body    1.5 Adult Salivary Gland    4.4 Adult Heart    1.125 Adult VirginFemale Spermatheca    2 Adult InseminatedFemale Spermatheca    3 Adult Ovary    3.5 Adult Testis no informative data Adult Male Accessory Gland    1 Adult Carcass    0.8 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    0.975 Larval Midgut no informative data Larval Hindgut    3.6 Larval Malpighian Tubules    0.8 Larval Fat Body    2.5 Larval Salivary Gland    2.7 Larval Trachea    1.05 Larval Carcass    3.175 Adult Head    0.7 Adult Eye    2.025 Adult Brain    1.1 Adult Thoracic-Abdominal Ganglion    1.3 Adult Crop    2.2 Adult Midgut no informative data Adult Hindgut    8.9 Adult Malpighian Tubules    7 Adult Fat Body    1.5 Adult Salivary Gland    4.4 Adult Heart    1.125 Adult VirginFemale Spermatheca    2 Adult InseminatedFemale Spermatheca    3 Adult Ovary    3.5 Adult Testis no informative data Adult Male Accessory Gland    1 Adult Carcass    0.8 Expression Level Scale  None   Low   Moderate   High   Very high  Heatmap Tissue   Expression Level Larval Central Nervous System     Larval Midgut no informative data Larval Hindgut     Larval Malpighian Tubules     Larval Fat Body     Larval Salivary Gland     Larval Trachea     Larval Carcass     Adult Head     Adult Eye     Adult Brain     Adult Thoracic-Abdominal Ganglion     Adult Crop     Adult Midgut no informative data Adult Hindgut     Adult Malpighian Tubules     Adult Fat Body     Adult Salivary Gland     Adult Heart     Adult VirginFemale Spermatheca     Adult InseminatedFemale Spermatheca     Adult Ovary     Adult Testis no informative data Adult Male Accessory Gland     Adult Carcass     FlyAtlas Organ/Tissue Expression, larval vs. adult Larval Expression Level Tissue Adult Expression Level   NA  Head    0.7   NA  Eye    2.025   NA  Brain    1.1   0.975  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    1.3   NA  Crop    2.2   no informative data  Midgut    no informative data   3.6  Hindgut    8.9   0.8  Malpighian Tubules    7   2.5  Fat Body    1.5   2.7  Salivary Gland    4.4   NA  Heart    1.125   1.05  Trachea    NA   NA  VirginFemale Spermatheca    2   NA  InseminatedFemale Spermatheca    3   NA  Ovary    3.5   NA  Testis    no informative data   NA  Male Accessory Gland    1   3.175  Carcass    0.8 modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010) mE2_34_mRNA_expression_cluster_31
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0022740 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG5005-RA
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal HLH54FS0323 semi-lethal (with Df(2R)02B10Y-12) HLH54FΔ219 HLH54FΔ598 semi-lethal (with Df(2R)14H10W-21) HLH54FΔ219 HLH54FΔ598 semi-lethal (with HLH54FS0323) HLH54FΔ598 semi-lethal (with HLH54FS1750) HLH54FΔ598 semi-lethal (with HLH54FΔ598) HLH54FS0323 HLH54FS1750 viable, with Scer\GAL4pnr-MD237 HLH54FGD4358 Other Phenotypes Allele increased cell death HLH54FΔ598 visible, with Scer\GAL4pnr-MD237 HLH54FGD4358 Phenotype manifest in Allele cardioblast, with Scer\GAL4how-24B, Scer\GAL4twi.2PE HLH54FScer\UAS.cIa embryonic somatic muscle, with Scer\GAL4how-24B, Scer\GAL4twi.2PE HLH54FScer\UAS.cIa longitudinal muscle HLH54FΔ598 HLH54FS1750 longitudinal muscle, with Scer\GAL4d.HLH54F HLH54FKK103428 longitudinal muscle (with HLH54FS1750) HLH54FΔ598 longitudinal muscle (with HLH54FΔ598) HLH54FS1750 longitudinal visceral muscle fiber HLH54FΔ598 HLH54FS1750 longitudinal visceral muscle fiber, with Scer\GAL4d.HLH54F HLH54FKK103428 longitudinal visceral muscle fiber (with HLH54FS1750) HLH54FΔ598 longitudinal visceral muscle fiber (with HLH54FΔ598) HLH54FS1750 longitudinal visceral muscle primordium HLH54FΔ598 HLH54FS1750 longitudinal visceral muscle primordium, with Scer\GAL4d.HLH54F HLH54FKK103428 longitudinal visceral muscle primordium (with HLH54FS1750) HLH54FΔ598 longitudinal visceral muscle primordium (with HLH54FΔ598) HLH54FS1750 mesothoracic tergum, with Scer\GAL4pnr-MD237 HLH54FGD4358 midgut muscle HLH54FΔ598 HLH54FS1750 midgut muscle, with Scer\GAL4how-24B, Scer\GAL4twi.2PE HLH54FScer\UAS.cIa midgut muscle (with HLH54FS1750) HLH54FΔ598 midgut muscle (with HLH54FΔ598) HLH54FS1750
Classical Alleles ( 4 )
For All Classical Alleles Show
Allele of HLH54F Class Mutagen Stocks Known lesion HLH54FS0323 ethyl methanesulfonate 0 Yes HLH54FS1750 ethyl methanesulfonate 0 Yes HLH54FΔ219 Delta2-3 0 Yes HLH54FΔ598 Delta2-3 0 Yes
Alleles Carried on Transgenic Constructs ( 5 )
For All Alleles Carried on Transgenic Constructs Show
Allele of HLH54F Class Mutagen Stocks Known lesion HLH54FGD4358 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes HLH54FJF03114 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes HLH54FKK103428 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes HLH54F+t4.5 0 Yes HLH54FScer\UAS.cIa in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(2R)Exel7150 (Ryder, 2004.4.26)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD4358} NA P{KK103428} NA P{TRiP.JF03114} NA P{UAS-HLH54F.i} NA characterization construct P{HLH54Ft4.5} NA
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 6 unique terms )
Terms Based on Experimental Evidence ( 3 terms )
Molecular Function
CV term Evidence References
protein heterodimerization activity inferred from physical interaction with da (Georgias et al., 1997)
Biological Process
CV term Evidence References
positive regulation of transcription from RNA polymerase II promoter inferred from mutant phenotype (Ismat et al., 2010) visceral muscle development inferred from mutant phenotype (Ismat et al., 2010)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 3 terms )
Molecular Function
CV term Evidence References
sequence-specific DNA binding RNA polymerase II transcription factor activity inferred from sequence or structural similarity with MGD:Tcf21; MGI:1202715 (Ismat et al., 2010) sequence-specific DNA binding transcription factor activity non-traceable author statement (FlyBase, 1992-)
Biological Process ( 0 terms)
Cellular Component
CV term Evidence References
nucleus inferred from sequence or structural similarity with MGD:Msc; MGI:1333884 (Ismat et al., 2010) inferred from sequence or structural similarity with MGD:Tcf21; MGI:1202715 (Ismat et al., 2010) non-traceable author statement (FlyBase, 1992-)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
Protein-protein
Interacting group Assay References
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions HLH54F allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 62712 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0022740 DroID - A comprehensive database of gene and protein interactions. • FBgn0022740 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 37027
Orthologs
Genome-wide drosophilid orthologs	Dana\GF11672 Dere\GG21821 Dgri\GH22024 Dmoj\GI19113 Dper\GL17221 Dpse\GA18588 Dsec\GM21822 Dsim\GD11315 Dvir\GJ22243 Dwil\GK22890 Dyak\GE11898
Curated drosophilid orthologs	Dpse\GA18588
Linkouts	InParanoid A subset of ortholog calls from InParanoid. • AAEL010031-PA Aedes aegypti (mosquito) AGAP007124-PA Anopheles gambiae (mosquito) CN23628 Caenorhabditis brenneri (small nematode) ENSCPOP00000019397 Cavia porcellus (guinea pig) ENSDARP00000072108 Danio rerio (zebra fish) ENSMODP00000015987 Monodelphis domestica (gray opossum) ENSMMUP00000003498 Macaca mulatta (rhesus monkey) PHUM008354-PA Pediculus humanus (human body louse) 55857 Trichoplax adhaerens (metazoa) ENSTNIP00000016074 Tetraodon nigroviridis (green spotted pufferfish) OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • LH22462 ISCW019706 FBgn0229682 FBgn0224852 FBgn0209356 FBgn0183064 FBgn0176699 JGI_V11_37461 FBgn0078589 FBgn0154824 FBgn0141852 FBgn0129485 FBgn0113999 FBgn0088712 CPIJ016930 BGIBMGA012033 ACYPI002601 GB11163 AGAP007124 AAEL010031 PB23051 PHUM294350 GLEAN_02349
Stocks & Reagents
Stocks Listed in FlyBase ( 3 )
Bloomington	28698 y1 v1; P{TRiP.JF03114}attP2
VDRC	v103965 P{KK103428}VIE-260B v13725 w1118; P{GD4358}v13725
Genomic Clones ( 1 )
	BACR20E20 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 36 )
	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	DPiM_RT01030 RT01030 RT01130
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones	98005 100157 EK220757 EK222910 RP004037630 RP004121983 RP004143490 RP004184861 RP004186322 RP004192694 RP004200711 RP004204994 RP004205819 RP004212618 RP004216244 RP004217869 RP004220656 RP004233199 RP004233316 RP004239112 RP004252779 RP004264161 RP004328864 RP004375689 RP004380668 RP004471372 RP004502972 RP004507811 RP004518750 RP004519473 RP004529770 RP004550979 RP004553949
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0022740 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 37027
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity 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)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_057954 RefSeq (Proteins) • NP_477302 DDBJ / EMBL / GenBank • AAF57795 AC004288 AJ000729 CAA04262 Entrez Gene - A searchable database of RefSeq genes. • 37027 UniProtKB/TrEMBL • O18374 Q0IGR5 Q0IGU7
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Helix-loop-helix DNA-binding (IPR011598)
Linkouts
	BioGRID - A database of protein and genetic interactions • 62712 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0022740 DroID - A comprehensive database of gene and protein interactions. • FBgn0022740 DRSC - Results from RNAi screens. • FBgn0022740 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0022740 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG5005-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0022740 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 37027 InParanoid A subset of ortholog calls from InParanoid. • AAEL010031-PA Aedes aegypti (mosquito) AGAP007124-PA Anopheles gambiae (mosquito) CN23628 Caenorhabditis brenneri (small nematode) ENSCPOP00000019397 Cavia porcellus (guinea pig) ENSDARP00000072108 Danio rerio (zebra fish) ENSMODP00000015987 Monodelphis domestica (gray opossum) ENSMMUP00000003498 Macaca mulatta (rhesus monkey) PHUM008354-PA Pediculus humanus (human body louse) 55857 Trichoplax adhaerens (metazoa) ENSTNIP00000016074 Tetraodon nigroviridis (green spotted pufferfish) InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 37027 modMine - Data generated by the modENCODE project. • FBgn0022740 OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • LH22462 ISCW019706 FBgn0229682 FBgn0224852 FBgn0209356 FBgn0183064 FBgn0176699 JGI_V11_37461 FBgn0078589 FBgn0154824 FBgn0141852 FBgn0129485 FBgn0113999 FBgn0088712 CPIJ016930 BGIBMGA012033 ACYPI002601 GB11163 AGAP007124 AAEL010031 PB23051 PHUM294350 GLEAN_02349
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	bHLH54F (Zaffran et al., 2001, San Martin et al., 2001, Kalscheuer et al., 2001, Hinz, 1997.9.9, Ismat et al., 2006, Frasch et al., 2007) bHLHa9 (Stevens et al., 2008) CG5005 (Stevens et al., 2008, Stevens et al., 2008, Keleman et al., 2009.8.5, Perkins et al., 2009) HLH54F (Hoskins et al., 2005, Jakobsen et al., 2007, Sandmann et al., 2006, Ismat et al., 2010) HLH54F-Dm (Namiki et al., 2009) HLH102C
Name Synonym	HLH54F
Secondary FlyBase IDs
	FBgn0020923
References ( 29 )
Generate a list of	All references relating to this gene ( 29 )
List References by type	Research paper  ( 12 ) Supplementary material  ( 5 ) Personal communication to FlyBase  ( 5 ) Abstract  ( 3 ) FlyBase analysis  ( 2 ) DNA/RNA sequence record  ( 1 ) Automatic genome annotation  ( 1 )
Recent research papers ( 1 )
	Ismat et al., 2010, Development 137(18): 3107--3117 HLH54F is required for the specification and migration of longitudinal gut muscle founders from the caudal mesoderm of Drosophila. [FBrf0211582] Show all research papers ...