A Database of Drosophila Genes & Genomes

FB2008_06, released July 3, 2008
 

Gene Dmel\Antp

General Information
SymbolDmel\AntpSpeciesD. melanogaster
NameAntennapediaAnnotation symbolCG1028
Feature typeprotein_coding_geneFlyBase IDFBgn0000095
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)3RRecombination map3-47.5
Cytogenetic map 84A6-84B2 Sequence location3R:2,721,975..2,824,950 [-]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
The gene Antennapedia is referred to in FlyBase by the symbol Antp (CG1028, FBgn0000095). It has the cytological map location 84A6-84B2. Its sequence location is 3R:2721975..2824950. Its molecular function is described as: specific RNA polymerase II transcription factor activity; sequence-specific DNA binding; transcription factor activity. It is involved in the biological processes: specification of segmental identity, antennal segment; midgut development; regulation of transcription from RNA polymerase II promoter; segment specification; heart development; lymph gland development; regulation of transcription, DNA-dependent. 142 alleles are reported. The phenotypes of these alleles are annotated with 76 unique terms, many of which group under: adult segment; peripheral nervous system; adult mesothoracic segment; thoracic segment; appendage segment; adult external prothorax; nervous system; antennal segment; embryonic segment; cuticle. It has 11 annotated transcripts and 11 annotated polypeptides.

External Summaries
hide Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage
Antp: Antennapedia
thumb
AntpLC: Antennapedia of Le Calvez
From Le Calvez, 1948, Bull. Biol. France Belg. 82: 97-113.
Null loss-of-function alleles result in embryonic lethality. Animals succumb at the end of embryogenesis and show homeotic transformations in the larval cuticle of the first, second, and third thoracic segments. Specifically the cuticle derived from parasegments 4 and 5 are transformed to a more anterior identity such that the posterior of the first thorax produces fragments of mouth hook material on its dorsal surface presumably owing to a new posterior labial identity, whereas the anterior of the second thorax resembles the first thorax. The anterior of the third thoracic segment is weakly transformed toward a T1-like identity. The posterior of T2 is presumably T1 like as there are no gnathal structures seen in this compartment. There are also partial loss-of-function mutations which allow survival into the larval, pupal, and adult stages. Those that allow adult survival produce animals in which the anterior of the dorsal mesothorax shows a transformation to prothorax. There are no other apparent defects associated with these lesions. Those "leaky" mutants which die in the pupal and larval stages show similar parasegmental transformations as the null alleles, except that only the parasegment 4 to 3 homeosis is generally apparent. Animals which survive to the pupal stage fail to evert their anterior spiracles resulting in a blunt appearance of the anterior pupa. This same phenotype is seen in genotypes which survive to the adult stage. These partial mutants in many cases are associated with chromosome rearrangements notably deletions which approach the locus from its distal end. Moreover these mutations have been shown to complement fully other seemingly null mutations. Subsequent molecular analyses have shown that these results are accounted for by the presence of two promotors, one, P1, distal to the other, P2. The partial mutants affect the ability of the P1 promotor to initiate transcription, while the complementing lesions inactivate P2. Null mutants affect the transcription unit and protein encoding portion of the gene which is common to both promotors (see below). X-ray induced somatic clones of Antp- cells demonstrate that the locus is required in the adult for the proper development of the dorsal pro and mesothorax, and legs. The former is reduced in size presumably reflecting an anteriorward transformation while the latter are transformed to antennae. Thus Antp+ function is required in the embryo and adult in parasegments 4 and 5 to prevent more anterior segmental identities, specifically those normally found in the anterior thorax and head. The Antp locus was initially recognized by virtue of several striking dominant gain-of-function alleles. Thirteen of these transform the antenna of the adult into a mesothoracic leg (Antp49, AntpB, AntpYu, AntpPw, AntpLC, AntpR, AntpWu, Antp50, AntpRM, Antp73b, AntpCB, Antp72j, and AntpNs). Three of these also have effects on the orbit of the eye and the vibrissal region of the ventral head (AntpRM, Antp72j, and AntpNs). There are also two dominant alleles (AntpCtx and AntpW) which transform portions of the head capsule (dorsal and posterior) and the eye to a dorsal mesothoracic identity. In some cases this includes the production of wing tissue in the eye. Finally, a unique dominant AntpHu produces bristles on the normally bald propleurae just ventral to the mesothoracic spiricle. This latter phenotype has been interpreted as the production of sternopleural bristles on the propleurae, and thus a T1 to T2 transformation. With the exception of AntpNs and Antp72j all these dominant lesions are associated with recessive lethality and gross chromosome rearrangements. All the breakpoints fall in the interval between the distal and proximal promotors. The dominant gain-of-function phenotype results from the misregulation of the P2 promotor by position affect or by the production of novel transcripts initiated in the newly juxtaposed sequences and spliced to the downstream Antp coding sequences. Both events result in the ectopic accumulation of the Antp protein product in the eye-antennal disc where the normal head repressive function of the gene causes the observed alteration. The recessive lethality associated with these lesions falls into the partially deficient category mentioned above. That is, these lesions show complementation with the P2 specific (Antp1 and Antp23) mutations and in general show only strong parasegment 4 -> parasegment 3 transformations. However, there is a gradient of this affect among the breakpoints. Those closest to P1 and furthest from P2 are the weakest, whereas those close to P2 show the strongest phenotype and earlier lethal phase. This same result is obtained with breakpoint mutations in the P2-to-P1 interval which are not associated with a dominant phenotype. Therefore this interval likely contains sequences necessary for the proper regulation of the P2 promoter. Three of the dominant gain-of-function lesions (AntpHu, Antp73b, and AntpNs) have been reverted. The revertants are either complete nulls, thus obviating the potential for ectopic expression, or are partial mutants; the latter mutants likely remove the potential for ectopic expression by altering the juxtaposed sequences required for abnormal P2 activity. Both in situ hybridization and immunostaining have been used to determine the spatio-temporal pattern of Antp expression. Both the protein and RNA are strongly accumulated in the ventral nerve cord and more weakly in the epidermis and mesoderm of the embryo. Protein and RNA are first detected during cellular blastoderm in a band of cells in the parasegment 4-6 anlagen. This initial spatial pattern is further elaborated at full germ-band extension. In the ectoderm Antp products are found starting in the region of the first thoracic segment (parasegments 3 and 4) and extending posteriorly to the level of the seventh abdominal segment. In the mesoderm, they are found in parasegments 4-6. During germ band shortening the gene products are accumulated in the CNS from parasegment 4 (posterior T1) through to the posterior end of the ventral nerve cord. In the integument transcripts and protein are mainly restricted to the parasegments 4-5 interval although some weak expression can be seen in parasegments 3. As embryogenesis proceeds, the posterior CNS expression diminishes but is still detectable at the end of embryogenesis. The major accumulation in the CNS at this time is in the neuromeres of parasegments 4 and 5. The mesodermal expression is found in the anterior midgut; quenching of Antp expression is found in the posterior portion of the anterior midgut and has been shown to be dependent on the expression of Ubx. In later stages Antp protein can be detected in the leg, dorsal prothoracic, and wing discs.
Apx: Antennapedex (R.E. Denell)
Males and heterozygous females show variable expression from small additional segment on the third antennal segment to a nearly complete leg including femur, tibia, and tarsus. Arista usually present. Homozygous females lethal but X0 males survive. Crosses involving either Apx males or females produce many inviable embryos.
hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
84A6-84B2  
Limits computationally determined from genome sequence between P{PZ}pb04498 and P{lacW}l(3)L2100L2100  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
84A-84A
84B1-84B2
(determined by in situ hybridisation)  
84A-84A
(determined by in situ hybridisation)  
84B1-84B2
(determined by in situ hybridisation)  
84B1-84B2
(determined by in situ hybridisation)  
84A4-84C2
(determined by in situ hybridisation)  
84B1-84B1
(determined by in situ hybridisation)  
84B1-84B1
(determined by in situ hybridisation)  
84B1-84B2
(determined by in situ hybridisation)  
84A-84C
(determined by in situ hybridisation)  
Experimentally Determined Recombination Data
Location
3-47.5
 
Left of (cM)
Right of (cM)
Notes
AntpHu has been recombination mapped to position 3-51.
Molecular Map Data
Gene Order (in direction of increasing cytology)
References
In direction of increasing cytology: Dfd? anon-84Ba? anon-84Bb? Scr- anon-84Bc? Scr- ftz+ anon-84Bd- Antp-
In direction of increasing cytology: Antp- sas+
In direction of increasing cytology: Scr- ftz+ anon-84Bd- Antp-
Gene Order (overall orientation not stated)
References
hide Gene Model & Products
Please see the GBrowse view of Dmel\Antp for information on other features
detailed view FBtr0081648 FBtr0081653 FBtr0081656 FBtr0081652 FBtr0081655 FBtr0081646 FBtr0081654 FBtr0081649 FBtr0081650 FBtr0081651 FBtr0081647 FBpp0089245 FBpp0089244 FBpp0089243 FBpp0089242 FBpp0089247 FBpp0081162 FBpp0089241 FBpp0089086 FBpp0081160 FBpp0081161 FBpp0089246 FBti0052280 FBti0050884 FBti0053998 FBti0042856 FBti0054877
Comments on Gene Model
Evidence for internal alternative splicing is from FBrf0047943 and FBrf0048668. There may be additional alternative transcripts created in vivo.
EST data support existence of multiple transcripts
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
FBtr0081648
  4890
  374
FBtr0081650
  4652
  365
FBtr0081653
  4863
  365
FBtr0081649
  4640
  361
FBtr0081646
  4111
  297
FBtr0081654
  3279
  378
FBtr0081655
  3490
  378
FBtr0081656
  4851
  361
FBtr0081652
  4902
  378
FBtr0081647
  4691
  378
FBtr0081651
  4679
  374
Additional Transcript Data & Comments
Reported size (kB)
5.0, 3.5 (northern blot)
4.9, 4.7, 3.5, 3.3, 1.0 (northern blot)
3.6 (unknown)
Comments
Alternative forms of Antp transcripts are formed by the use of two splice donor sites at the 3\\' end of the seventh exon that are separated by 12 bases and by the exclusion or inclusion of the 39 base sixth exon. This is in addition to the previously noted use of alternative promoters and polyadenylation sites.
Several transcripts of ~1 kb are detected with an Antp exon 1 probe. An 849 base cDNA with a polyA tail has been isolated.
A 2.2kb cDNA was isolated from an early embryonic cDNA library. The cDNA hybridizes to four regions within a 100kb span of genomic DNA.
A 2.9kb cDNA was isolated from a pupal cDNA library. The cDNA hybridizes to three regions within a 37kb span of genomic DNA. The first region falls within an intron of the larger Antp transcription unit and the second two regions are in common between the two transcription units.
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
FBpp0089241  
42.3  
374  
8.46  
FBpp0089243  
41.4  
365  
9.20  
FBpp0089244  
41.4  
365  
9.20  
FBpp0089242  
41.0  
361  
9.17  
FBpp0081160  
32.8  
297  
6.97  
FBpp0089245  
42.8  
378  
8.58  
FBpp0089246  
42.8  
378  
8.58  
FBpp0089247  
41.0  
361  
9.17  
FBpp0081162  
42.8  
378  
8.58  
FBpp0081161  
42.8  
378  
8.58  
FBpp0089086  
42.3  
374  
8.46  
Additional Polypeptide Data & Comments
Reported size (kD)
378 (aa); 43 (kD predicted)
378, 374, 365, 361 (aa)
Comments
Sequences of the mammalian thyroid transcription factor 1 (TTf-1) and Antp homeodomains were exchanged to identify regions responsible for DNA binding specificity. Mutations that make the TTf-1 recognition helix identical to that of Antp have no effect on binding specificity. Sequences outside of the recognition helix are shown to play a role in determining binding specificity.
The secondary structure of an N-terminally elongated Antp protein fragment, including both the homeodomain and the YPWM motif, from amino acids -14 to +67 was determined by NMR in solution (this study). Results strongly support the conclusion that the homeodomain is connected through a flexible linker to the main body in the Antp protein and that the minor groove contacts by residues 1-6 are intrinsic to the DNA binding interactions of the Antp protein (this study). The stability and specificity of the DNA binding previously observed for the shorter Antp homeodomain polypeptide is preserved for the elongated polypeptide.
The 1:1 complex of the mutant AntpC39S homeodomain with a 14bp DNA fragment corresponding to the BS2 binding site was studied by NMR spectroscopy in aqueous solution. The AntpC39S protein and the DNA were found to have similar conformations in the free form and in the complex. In the complex, intermolecular 1H-1H Overhauser effects (NOE) are involved in protein-DNA binding.
NMR spectroscopy in solution was used to determine the structure of the Antp homeodomain. It includes 3 well defined helices (residues 10-21, 28-38, and 42-52) and a more flexible fourth helix (53-59). Residues 30-50 form a helix-turn-helx motif like those in various prokaryotic repressors. The fourth helix is unique to the Antp homeodomain.
External Data
Linkouts
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
Homeobox (IPR001356)
Homeodomain-like (IPR009057)
Homeodomain-related (IPR012287)
PDB - Protein Data Bank. An information portal to biological macromolecular structures
TRANSFAC - Eukaryotic transcription factors, their genomic binding sites, and DNA-binding profiles
  • R00129
  • R00130
  • R00131
  • R00132
  • R01871
  • R01872
  • R01873
  • R01874
  • R01875
  • R01876
  • R01877
  • R02510
  • T00026
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
 
 
 
 
 
 
 
 
 
 
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL
Maps to
Does NOT map to
Identified with
hide Mapped Features & Mutations
Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here
Type
Symbol & Location
Additional Notes
References
aberration junction
In(3R)Antp[73b].bk1
3R:2,796,393..2,823,927
comment=The inversion breakpoint lies within an intron of Antp.
evidence=experimental
protein binding site
Antp-protein_bind-1
3R:2,825,156..2,825,170
bound_moiety=Adf1-XP
comment=TF:R00130, Antp P1-C
evidence=experimental
protein binding site
Antp-protein_bind-2
3R:2,825,120..2,825,144
bound_moiety=Adf1-XP
comment=TF:R00131, Antp P1-B
evidence=experimental
protein binding site
Antp-protein_bind-3
3R:2,825,047..2,825,060
bound_moiety=Adf1-XP
comment=TF:R00132, Antp P1-A
evidence=experimental
protein binding site
Antp-protein_bind-4
3R:2,825,027..2,825,040
bound_moiety=Adf1-XP
comment=TF:R00132, Antp P1-A
evidence=experimental
protein binding site
Antp-protein_bind-10
3R:2,827,254..2,827,261
bound_moiety=ftz-XP
evidence=experimental
protein binding site
Antp-protein_bind-11
3R:2,759,096..2,759,117
bound_moiety=Ubx-XP
evidence=experimental
bound_moiety=abd-A-XP
protein binding site
Antp-protein_bind-12
3R:2,758,778..2,758,791
protein binding site
Antp-protein_bind-13
3R:2,830,986..2,831,027
bound_moiety=Antp-XP
evidence=experimental
protein binding site
Antp-protein_bind-14
3R:2,826,123..2,826,136
bound_moiety=ftz-XP
evidence=experimental
protein binding site
Antp-protein_bind-15
3R:2,758,676..2,758,698
bound_moiety=Ubx-XP
evidence=experimental
protein binding site
Antp-protein_bind-16
3R:2,759,514..2,759,528
bound_moiety=Ubx-XP
evidence=experimental
bound_moiety=abd-A-XP
protein binding site
Antp-protein_bind-17
3R:2,760,146..2,760,191
evidence=experimental
bound_moiety=Ubx-XP
bound_moiety=abd-A-XP
protein binding site
Antp-protein_bind-18
3R:2,823,481..2,823,496
bound_moiety=ftz-XP
evidence=experimental
protein binding site
Antp-protein_bind-19
3R:2,758,587..2,758,615
protein binding site
Antp-protein_bind-20
3R:2,759,395..2,759,422
evidence=experimental
bound_moiety=Ubx-XP
bound_moiety=abd-A-XP
protein binding site
Antp-protein_bind-21
3R:2,830,985..2,831,067
bound_moiety=Ubx-XP
evidence=experimental
protein binding site
Antp-protein_bind-22
3R:2,759,244..2,759,253
bound_moiety=Ubx-XP
evidence=experimental
bound_moiety=abd-A-XP
protein binding site
Antp-protein_bind-23
3R:2,831,032..2,831,072
bound_moiety=Antp-XP
evidence=experimental
protein binding site
Antp-protein_bind-24
3R:2,824,588..2,824,599
bound_moiety=ftz-XP
evidence=experimental
protein binding site
Antp-protein_bind-25
3R:2,759,631..2,759,661
bound_moiety=Ubx-XP
evidence=experimental
bound_moiety=abd-A-XP
protein binding site
Antp-protein_bind-26
3R:2,759,001..2,759,016
bound_moiety=Ubx-XP
evidence=experimental
bound_moiety=abd-A-XP
protein binding site
Antp-protein_bind-27
3R:2,758,510..2,758,544
protein binding site
Antp-protein_bind-28
3R:2,760,472..2,760,489
bound_moiety=Ub