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Gene Dmel\iab-4

General Information
Symbol	Dmel\iab-4	Species	D. melanogaster
Name	iab-4	Annotation symbol	CR31271
Feature type	non_protein_coding_gene	FlyBase ID	FBgn0020546
Gene Model Status	Current	Stock availability	None publicly available
Genomic Location
Chromosome (arm)	3R	Recombination map	3-
Cytogenetic map	89E3-89E3	Sequence location	3R:12,675,726..12,682,219 [+]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents Beta	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene iab-4 is referred to in FlyBase by the symbol Dmel\iab-4 (CR31271, FBgn0020546). It is a non_protein_coding_gene from Drosophila melanogaster. Its molecular function is unknown. The biological processes in which it is involved are not known. 7 alleles are reported. The phenotypes of these alleles are annotated with: ovary; pole cell; adult abdominal segment 1; testis; adult abdominal segment 5; adult abdominal segment 2; oviduct; adult abdominal segment 4. It has 2 annotated transcripts. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of low expression to a trough of extremely low expression. Peak expression observed within 00-12 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: No FlyAtlas data available because no Affy2 ProbeSet aligns to an exon of iab-4. Comments on Affy2 ProbeSet: No relevant information because no Affy2 ProbeSet aligns to an exon of iab-4. Gene sequence location is 3R:12675726..12682219.
User Contributed Data
	Beta version, feedback welcome
External Summaries
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.
FB2013_03
FB2013_02
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 89E3-89E3   Limits computationally determined from genome sequence between P{lacW}CSN5L4032 and P{EP}MESK4EP1015
Experimentally Determined Cytological Location
Cytogenetic map Notes References 89E2-89E2   Based on proximity to abd-A.   (Martin et al., 1995)
Experimentally Determined Recombination Data
Location	3- (Martin et al., 1995)
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\iab-4 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	miRNA(s) located within the transcribed region of this non-coding RNA gene. Gene model reviewed during 5.48
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt)   iab-4-RA FBtr0083362  NR_002037   2113   iab-4-RB FBtr0083363  NR_002036   1807
Additional Transcript Data & Comments
Reported size (kB)	2.0, 1.7 (northern blot) (Cumberledge et al., 1990)
Comments
External Data
Crossreferences
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence   Name M32109
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
No Assay Recorded Stage Tissue/Position (including subcellular localization) Reference embryonic stage 4   organism | posterior   (Cumberledge et al., 1990) embryonic stage 8   parasegment 8 -- parasegment 14   (Cumberledge et al., 1990) in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 17     (Cumberledge et al., 1990) embryonic stage 4   organism | 10-60% egg length   (Cumberledge et al., 1990)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
modENCODE Anatomy RNA-Seq
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (modENCODE_mRNA-Seq_U)    Styles Linear Logarithmic Heatmap    Scales gene max expression 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 low expression to a trough of extremely low expression. Peak expression observed within 00-12 hour embryonic stages. [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    3 embryo 04-06hr    4 embryo 06-08hr    2 embryo 08-10hr    2 embryo 10-12hr    1 embryo 12-14hr    1 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    0 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    0 larva L3 puffstage 7-9    0 white prepupae new    0 white prepupae 12hr    0 white prepupae 24hr    0 pupae 2d postWPP    0 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    0 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    3 embryo 04-06hr    4 embryo 06-08hr    2 embryo 08-10hr    2 embryo 10-12hr    1 embryo 12-14hr    1 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    0 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    0 larva L3 puffstage 7-9    0 white prepupae new    0 white prepupae 12hr    0 white prepupae 24hr    0 pupae 2d postWPP    0 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    0 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    3 embryo 04-06hr    4 embryo 06-08hr    2 embryo 08-10hr    2 embryo 10-12hr    1 embryo 12-14hr    1 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    0 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    0 larva L3 puffstage 7-9    0 white prepupae new    0 white prepupae 12hr    0 white prepupae 24hr    0 pupae 2d postWPP    0 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    0 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    3 embryo 04-06hr    4 embryo 06-08hr    2 embryo 08-10hr    2 embryo 10-12hr    1 embryo 12-14hr    1 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    0 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    0 larva L3 puffstage 7-9    0 white prepupae new    0 white prepupae 12hr    0 white prepupae 24hr    0 pupae 2d postWPP    0 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    0 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    3 embryo 04-06hr    4 embryo 06-08hr    2 embryo 08-10hr    2 embryo 10-12hr    1 embryo 12-14hr    1 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    0 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    0 larva L3 puffstage 7-9    0 white prepupae new    0 white prepupae 12hr    0 white prepupae 24hr    0 pupae 2d postWPP    0 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    0 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    3 embryo 04-06hr    4 embryo 06-08hr    2 embryo 08-10hr    2 embryo 10-12hr    1 embryo 12-14hr    1 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    0 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    0 larva L3 puffstage 7-9    0 white prepupae new    0 white prepupae 12hr    0 white prepupae 24hr    0 pupae 2d postWPP    0 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    0 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    3 embryo 04-06hr    4 embryo 06-08hr    2 embryo 08-10hr    2 embryo 10-12hr    1 embryo 12-14hr    1 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    0 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    0 larva L3 puffstage 7-9    0 white prepupae new    0 white prepupae 12hr    0 white prepupae 24hr    0 pupae 2d postWPP    0 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    0 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    3 embryo 04-06hr    4 embryo 06-08hr    2 embryo 08-10hr    2 embryo 10-12hr    1 embryo 12-14hr    1 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    0 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    0 larva L3 puffstage 7-9    0 white prepupae new    0 white prepupae 12hr    0 white prepupae 24hr    0 pupae 2d postWPP    0 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    0 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    0 Expression Level Scale  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     modENCODE Temporal Expression Data (Graveley et al., 2011)
modENCODE Cell Lines RNA-Seq
modENCODE Treatments RNA-Seq
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (Graveley et al., 2011) mE1_20_mRNA_expression_cluster_07
External Data & Images
Linkouts
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable iab-445 iab-4125 iab-4166 iab-4302 Sterility Allele female sterile iab-4302 female sterile | recessive iab-4DB male sterile iab-4302 male sterile | recessive iab-4DB Other Phenotypes Allele visible | homeotic iab-445 iab-4302 iab-4MX4 visible | recessive iab-4DB Phenotype manifest in Allele adult abdominal segment 1 iab-4MX4 adult abdominal segment 2 iab-4302 iab-445 adult abdominal segment 4 iab-4302 iab-4MX4 adult abdominal segment 5 iab-4302 gonad | precursor iab-4166 iab-4302 iab-445 iab-4DB ovary iab-445 oviduct iab-445 pole cell iab-4166 iab-4302 testis iab-445
Classical Alleles ( 7 )
For All Classical Alleles Show
Allele of iab-4 Class Mutagen Stocks Known lesion iab-4125 X ray 0 Yes iab-4166 X ray 0 Yes iab-4302 X ray 0 Yes iab-445 X ray 0 Yes iab-4DB 0 Yes iab-4McR1 loss of function allele 0 Yes iab-4MX4 gain of function allele X ray 0 --
Alleles Carried on Transgenic Constructs ( 0 )
For All Alleles Carried on Transgenic Constructs Show
Allele of iab-4 Class Mutagen Stocks Known lesion
Aneuploid Aberrations
Disrupted in	Df(3R)abd-Aiab4,5-DB (Karch et al., 1985, Cumberledge et al., 1990) Df(3R)McR1 (Karch et al., 1990) In(3LR)iab4166 (Cumberledge et al., 1990) T(2;3;4)iab4302 (Cumberledge et al., 1990) T(2;3)iab445 (Karch et al., 1985, Cumberledge et al., 1990) T(3;4)iab4125 (Cumberledge et al., 1990)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 0 unique terms )
Terms Based on Experimental Evidence ( 0 terms )
Terms Based on Predictions or Assertions ( 0 terms )
Sequence Ontology: Class of Gene
	non_protein_coding_gene   nuclear_gene
Interactions & Pathways
Summary of Physical Interactions
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions iab-4 allele Gene References
External Data
Linkouts
Orthologs
OrthoDB Orthologs (0) - based on analysis using Dmel annotation version 5.41
OrthoDB Ortholog Groups
	OrthoDB orthology group searches (Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288) Drosophila inclusive ortholog search No orthologs identified Dipteran inclusive ortholog search No orthologs identified Insect inclusive ortholog search No orthologs identified Arthropod inclusive ortholog search No orthologs identified Metazoa inclusive ortholog search No orthologs identified
Orthologs in Drosophila Species (None identified)
No orthologies identified
Orthologs in non-Drosophila Dipterans (None identified)
No non-Drosophilid orthologies identified
Orthologs in non-Dipteran Insects (None identified)
No non-Dipteran orthologies identified
Orthologs in non-Insect Arthropods (None identified)
No non-Insect Arthropod orthologies identified
Orthologs in non-Arthropod Metazoa (None identified)
No non-Arthropod Metazoa orthologies identified
Human Orthologs (0)
Gene OMIM HGNC
AAA Orthologs (0) based on analysis using Dmel annotation version 4.3
No orthologs identified
Stocks & Reagents
Stocks Listed in FlyBase ( 0 )
Genomic Clones ( 1 )
	BACR24L18 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 0 )
	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
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0020546 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 3772110
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments	The "iab-8" non-coding transcript encodes a microRNA (represented by "mir-iab-8") derived from a hairpin which is complementary to the hairpin present in the "iab-4" non-coding transcript (the hairpin in the "iab-4" transcript is represented by "mir-iab-4"). (Bender, 2008) The "iab-4" locus produces two microRNAs, represented by "mir-iab-4". (Ronshaugen et al., 2005)
Other Comments
	New annotation (CR31271) in release 3 of the genome annotation. (FlyBase Genome Annotators, 2002-2003) The transcription unit that produces the noncoding iab-4 transcript has been identified. (Lewis et al., 1995) Non-coding RNA regulating abd-A. (Martin et al., 1995)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NR_002036 NR_002037 DDBJ / EMBL / GenBank • M32109 U31961 Entrez Gene - A searchable database of RefSeq genes. • 3772110
Other Crossreferences
Linkouts
	DRSC - Results from RNAi screens. • FBgn0020546 FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0020546 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 3772110 Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /segment/iab4-1.htm modMine - Data generated by the modENCODE project. • FBgn0020546
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	CR31271   I (Casares and Sanchez-Herrero, 1995) iab (Mattick and Gagen, 2001) iab-4 (Lemons and McGinnis, 2006, Prasanth and Spector, 2007, Stark et al., 2008, Chopra and Mishra, 2006, Enderle et al., 2011, Holohan et al., 2007, Bender, 2008, Zhimulev et al., 2003, Lemons et al., 2012, Tyler et al., 2008, Graveley et al., 2011) iab4 (Sanchez-Elsner et al., 2006)
Name Synonym	domain I (Sanchez-Herrero and Akam, 1989) iab-4 (Holohan et al., 2007)
Secondary FlyBase IDs
	FBan0031271 FBgn0051271
References ( 47 )
Generate a list of	All references relating to this gene ( 47 )
List References by type	Research paper  ( 33 ) Supplementary material  ( 2 ) Review  ( 8 ) Abstract  ( 2 ) FlyBase analysis  ( 1 ) Obituary  ( 1 )
Recent research papers ( 3 )
	Lemons et al., 2012, PLoS ONE 7(2): e31365 Three Drosophila Hox Complex microRNAs Do Not Have Major Effects on Expression of Evolutionarily Conserved Hox Gene Targets during Embryogenesis. [FBrf0217592] Enderle et al., 2011, Genome Res. 21(2): 216--226 Polycomb preferentially targets stalled promoters of coding and noncoding transcripts. [FBrf0213048] Graveley et al., 2011, Nature 471(7339): 473--479 The developmental transcriptome of Drosophila melanogaster. [FBrf0213330] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...