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Gene Dmel\slp2

General Information
Symbol	Dmel\slp2	Species	D. melanogaster
Name	sloppy paired 2	Annotation symbol	CG2939
Feature type	protein_coding_gene	FlyBase ID	FBgn0004567
Created / Updated	2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)	2L	Recombination map	2-8
Cytogenetic map	24C7-24C7	Sequence location	2L:3,836,842..3,839,201 [+]
Map ( 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 sloppy paired 2 is referred to in FlyBase by the symbol slp2 (CG2939, FBgn0004567). It has the cytological map location 24C7. Its sequence location is 2L:3836842..3839201. Its molecular function is described as: RNA polymerase II transcription factor activity; transcription factor activity; sequence-specific DNA binding. It is involved in the biological processes: regulation of transcription; periodic partitioning; regulation of transcription, DNA-dependent. 7 alleles are reported. The phenotypes of these alleles are annotated with: abdominal segment 1; abdominal segment 2; abdominal segment 3; abdominal segment 4; cuticle; denticle belt; embryonic/larval dorsal vessel; RP2 neuron; RP2sib neuron; neuroblast NB4-2. It has one annotated transcript and one annotated polypeptide.
External Summaries
Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage	slp: sloppy paired Embryonic lethal. Embryos lack parts of naked cuticle of T2, A1, A3, A5, and A7 in an irregular fashion. No effect of ftz expression (Carroll and Scott, 1986, Cell 45: 113-26).
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 24C7-24C7   Limits computationally determined from genome sequence between P{EP}EP2595EP2595 and P{lacW}edk01102
Experimentally Determined Cytological Location
Cytogenetic map Notes References 24D-24D (determined by in situ hybridisation)   (Hacker et al., 1992)
Experimentally Determined Recombination Data
Location	2-8
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology) References Gene Order (overall orientation not stated) References
Gene Model & Products
Please see the GBrowse view of Dmel\slp2 for information on other features
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) slp2-RA FBtr0077500  NM_057486   2360   451
Additional Transcript Data & Comments
Reported size (kB)	2.2 (northern blot) (Grossniklaus et al., 1992)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kD) Length (aa) Theoretical pI RefSeq ID GenBank protein slp2-PA   FBpp0077189   49.2   451   6.51     NP_476834   AAF51057
Additional Polypeptide Data & Comments
Reported size (kD)	445 (aa) (Grossniklaus et al., 1992)
Comments
External Data
Linkouts	PANTHER - Protein classification by function, families, and pathways • FBgn0004567
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Fork head transcription factor (IPR001766) Winged helix repressor DNA-binding (IPR011991) TRANSFAC - Eukaryotic transcription factors, their genomic binding sites, and DNA-binding profiles • T01056
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AC004781   AC005732   AC010694   AC092240   AE003578 AAF51057   AY071031 AAL48653   BI170011   BI173657   BI373378   BI578665   BT030401   CO264846   CO295535   CO298662   CO332023   CO341251   EC075472   EC085676   EC087763   EC203039   EC209850   EC211486   EC225963   EC228152   EC236512   EC257133   X66097 CAA46891   X66098 CAA46892
UniProtKB/Swiss-Prot	P32031
UniProtKB/TrEMBL	Q8SZ95
Maps to	DS03998 FBcl0297461 (FlyBase, 1992-)
Does NOT map to
Identified with	RE11345 (BDGP Project Members, 2000-)
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
External Data
Linkouts	DEDB - Drosophila exon database: splicing graphs • 5392
Crossreferences
Expression Data
FlyBase-Curated Data
Transcript and Protein data	Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
Summary of Transcript Expression
Stage Tissue/Position Reference  embryonic stage | stage >7  labral segment (Grossniklaus et al., 1992)  embryonic stage | stage >7  mandibular segment (Grossniklaus et al., 1992)  embryonic stage | stage >7  intercalary segment (Grossniklaus et al., 1992)  embryonic stage   (Hacker et al., 1992)  embryonic stage | stage 6   (Grossniklaus et al., 1992)  embryonic stage | stage >7  embryonic procephalic segment | lateral (Grossniklaus et al., 1992)  embryonic stage | stage 4 | late   (Grossniklaus et al., 1992)  embryonic stage   (Hacker et al., 1992)  embryonic stage | stage 4 | late   (Grossniklaus et al., 1992)  embryonic stage | stage 5   (Grossniklaus et al., 1992)  embryonic stage   (Hacker et al., 1992)  embryonic stage | stage >=13  ventral nerve cord (Grossniklaus et al., 1992)  embryonic stage | stage >=13  proventriculus (Grossniklaus et al., 1992)
Marker for
Subcellular Localization
CV Term
Summary of Polypeptide Expression
Stage Tissue/Position Reference  embryonic stage | stage 7   (Cadigan et al., 1994)  embryonic stage | stage 8   (Cadigan et al., 1994)
Marker for
Subcellular Localization
CV Term
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0004567 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • FBgn0004567 GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies • FBgn0004567 BDGP expression data • Show all BDGP original images, annotations and embryonic microarray data for slp2 FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for slp2 Stage(s) 1-3 Stage(s) 4-6 Stage(s) 7-8 Stage(s) 9-10 Stage(s) 11-12 Stage(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | embryonic stage slp2Δ34B Phenotype manifest in Allele abdominal segment 1 slp2Δ34B abdominal segment 2 slp2Δ34B abdominal segment 3 slp2Δ34B abdominal segment 4 slp2Δ34B cuticle slp2Δ34B denticle belt slp2Δ34B embryonic/larval dorsal vessel slp2hs.PC abdominal 8 ventral denticle belt & embryo slp2hs.PC abdominal 1 ventral denticle belt & embryo slp2hs.PC abdominal 2 ventral denticle belt & embryo slp2hs.PC abdominal 3 ventral denticle belt & embryo slp2hs.PC abdominal 4 ventral denticle belt & embryo slp2hs.PC abdominal 5 ventral denticle belt & embryo slp2hs.PC abdominal 6 ventral denticle belt & embryo slp2hs.PC abdominal 7 ventral denticle belt & embryo slp2hs.PC RP2 neuron | ectopic slp2hs.PC RP2sib neuron | ectopic slp2hs.PC neuroblast NB4-2 | ectopic slp2hs.PC
Classical Alleles ( 4 )
For All Classical Alleles Show
Allele of slp2 Class Mutagen Stocks Known lesion slp2AVm P-element activity 0 Yes slp2S37A P-element activity 0 Yes slp2Δ34B amorph Δ2-3 0 Yes slp2Δ66C Δ2-3 0 Yes
Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Allele of slp2 Class Mutagen Stocks Known lesion slp2GD4389 in vitro construct | RNAi in vitro construct | regulatory fusion 2 Yes slp2Scer\UAS.cRa in vitro construct | regulatory fusion 0 Yes slp2hs.PC in vitro construct | regulatory fusion 0 Yes
Aneuploid Aberrations
Useful deficiency	Df(2L)ed1
Disrupted in	Df(2L)Exel6009 (Ryder, 2004.4.26) Df(2L)ed1 (Jaynes and Fujioka, 2004, Grossniklaus et al., 1992, Cadigan et al., 1994, Cadigan et al., 1994, Harbecke and Lengyel, 1995) Df(2L)slp-Δ34B (Cadigan et al., 1994, Cadigan et al., 1994) Df(2L)slp2-Δ66C (Grossniklaus et al., 1992) Ts(YLt;2Rt)H121 (Muller et al., 1999) Ts(YLt;2Rt)J136 (Muller et al., 1999)
Partially disrupted in	Df(2L)slpS37A (Sato and Tomlinson, 2007)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data reporter construct P{slp2-lacZ.-3} No UAS construct P{GD4389} NA P{UAS-slp2.R} NA heat-shock construct P{HS-slp2} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions P{UASunk}slp2AVm NA insertion of enhancer trap P{lArB}A208.1M2 Yes
Related Comments
	Please look at the allele reports for the complete phenotype data Embryonic lethal. Embryos lack parts of naked cuticle of T2, A1, A3, A5 and A7 in an irregular fashion. No effect of ftz expression. (Lindsley and Zimm, 1992) One of the major targets of slp2 action is the wg gene, slp2 alone can maintain wg expression. (Cadigan et al., 1994) slp2 is an activator of wg and a repressor of en and through these activities the distribution of slp2 defines en-competent cells (lacking slp2 protein) and wg-competent cells (containing slp2 protein). The localised expression of slp2 is required to maintain the proper anterior border of the en stripes and restrict wg expression to one side of the en/hh domain. (Cadigan et al., 1994) slp1 and slp2 are regulated by a common enhancer region upstream of slp1. slp1/slp2 act as a head-specific gap gene in addition to the function as a pair-rule and segment polarity gene in the trunk. slp1 plays a predominent role in head formation while slp2 is largely dispensible. slp1/slp2 expression depends on bcd, suggesting that the slp genes are candidates for gene X. Head specific expression of the slp genes is generated in response to complex interactions between the anterior, terminal and dorsoventral systems. (Grossniklaus et al., 1994) Gsc expression is controlled by dpp, oc, slp1/slp2 and tll. (Goriely et al., 1996) Co-crystal structure of the HNF-3/fork head DNA-recognition motif resembles histone H5. (Clark et al., 1993)
Gene Ontology: Function, Process & Cellular Component ( 7 )
Molecular Function
CV term Evidence References
RNA polymerase II transcription factor activity inferred from sequence or structural similarity with UniProtKB:Q90964 (FlyBase, 1992-)
sequence-specific DNA binding inferred from electronic annotation with InterPro:IPR001766 (FlyBase Curators et al., 2004-)
transcription factor activity non-traceable author statement (Swiss-Prot Project Members, 1993.7.1) inferred from electronic annotation with InterPro:IPR001766 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
periodic partitioning non-traceable author statement (Swiss-Prot Project Members, 1993.7.1)
regulation of transcription inferred from sequence or structural similarity with UniProtKB:Q90964 (FlyBase, 1992-)
regulation of transcription, DNA-dependent inferred from electronic annotation with InterPro:IPR001766 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
nucleus inferred from sequence or structural similarity with UniProtKB:Q90964 (FlyBase, 1992-) non-traceable author statement (Swiss-Prot Project Members, 1993.7.1)
Sequence Ontology: Class of Gene
	protein_coding_gene   nuclear_gene
Interactions & Pathways
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions slp2 allele Gene References slp2hs.PC wg (Bhat et al., 2000) slp2Δ34B slp1 (Lee and Frasch, 2000) unspecified gsb (Bhat et al., 2000)
External Data
Linkouts	BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions • 59811
Orthologs
Genome-wide drosophilid orthologs	Dana\GF15039 Dere\GG24972 Dgri\GH11194 Dmoj\GI18115 Dper\GL18683 Dpse\GA15533 Dsec\GM18443 Dvir\GJ16301 Dwil\GK15484 Dyak\GE18263
Curated drosophilid orthologs	Dpse\GA15533
Linkouts	InParanoid orthologs - Eukaryotic orthologs • ENSANGP00000025119 Anopheles gambiae (Ensembl) ENSCAFP00000029496 Canis familiaris (Ensembl) NEWSINFRUP00000178640 Takifugu rubripes (Ensembl) ENSGALP00000015999 Gallus gallus (Ensembl) ENSP00000339004 Homo sapiens (Ensembl) ENSMMUP00000024409 Macaca mulatta (Ensembl) ENSMODP00000021887 Monodelphis domestica (Ensembl) ENSPTRP00000026619 Pan troglodytes (Ensembl) ENSRNOP00000023091 Rattus norvegicus (Ensembl) GSTENP00004048001 Tetraodon nigroviridis (Ensembl) ENSXETP00000022589 Xenopus tropicalis (Ensembl) WBGene00034833 Caenorhabditis briggsae (Wormbase) WBGene00001434 Caenorhabditis elegans (Wormbase) ZDB-CDNA-050417-42 Danio rerio (Zfin) ZDB-GENE-990415-267 Danio rerio (Zfin) MGI:1347464 Mus musculus (Informatics)
Functional Complementation between Species
Inter-Species Misexpression Data
Produces phenotype in
Produces NO phenotype in
Stocks & Reagents
Stocks Listed in FlyBase ( 4 )
VDRC	v37657 w1118; P{GD4389}v37657 v37658 w1118; P{GD4389}v37658
Bloomington	745 y1 w*; CyO, P{lArB}A208.1M2/L2; MRS/TM6B, P{35UZ}DB1, Tb1 1272 CyO, P{lArB}A208.1M2/L2; Ki1 ftzH20/TM2, ry* P{lArB}C40.1S3
Genomic Clones ( 1 )
	BACR06H02
cDNA Clones ( 9 )
	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	RE11345
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	RE16737 RE72562 RE60645
Other clones	EK173443 EK302330 EK140453 EK210627 EP12121
RNAi & Array Information
Affy Oligo
Linkouts	DRSC - RNAi screening (Harvard): high-throughput cell culture data and design • FBgn0004567 GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data • FBgn0004567
Antibody Information
	polyclonal (Cadigan et al., 1994)
Other Information
Discoverer
Etymology
Identification
Position Effect Variegation Data
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Comments About Role
	One copy of slp2 is sufficient to ensure proper segmentation of the even numbered abdominal segments in a slp1- background. slp1 and slp2 are not equivalent as only one copy of each is required for viability. (Grossniklaus et al., 1992) Mutant analysis shows that wild type slp2 function is required to set up expression of ac in row B of the embryonic proneural cluster. (Skeath et al., 1992) slp1 and slp2 control all aspects of differentiation in the slp domain, including segmental repression of bap, maintenance of high levels of twi and hence myogenesis. (Riechmann et al., 1997) slp1 and slp2 function downstream of wg signaling to generate the NB4-2 cell. (Bhat et al., 2000) wg and slp1/slp2 act in a common pathway in which slp1/slp2 serves as a direct target of wg signals that mediates wg effects in both ectoderm and mesoderm. slp1/slp2 act downstream of wg to repress bap and visceral mesoderm formation. (Lee and Frasch, 2000)
Comments About Molecular Function
	wg signalling induces striped expression of slp1/slp2 in the mesoderm, providing striped mesodermal domains competent to respond to subsequent slp1/slp2-independent wg signals that induce somatic muscle and heart progenitors. In wg expressing ectodermal cells, slp1/slp2 is an integral component in an autocrine feedback loop of wg signalling. (Lee and Frasch, 2000)
Other Comments
	One of seven genes identified on basis of sequence similarity to the 110 amino acid forkhead domain that is conserved in the rodent hepatocyte enriched nuclear transcription factor. (Hacker et al., 1992)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_057486 RefSeq (Proteins) • NP_476834 DDBJ / EMBL / GenBank • AC004781 AC005732 AC010694 AC092240 AE003578 AAF51057 AY071031 AAL48653 BI170011 X66097 CAA46891 X66098 CAA46892 UniProtKB/Swiss-Prot • P32031 UniProtKB/TrEMBL • Q8SZ95
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Fork head transcription factor (IPR001766) Winged helix repressor DNA-binding (IPR011991) TRANSFAC - Eukaryotic transcription factors, their genomic binding sites, and DNA-binding profiles • T01056
Linkouts
	BDGP expression data • Show all BDGP original images, annotations and embryonic microarray data for slp2 BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions • 59811 DEDB - Drosophila exon database: splicing graphs • 5392 DRSC - RNAi screening (Harvard): high-throughput cell culture data and design • FBgn0004567 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0004567 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • FBgn0004567 FlyExpress - Embryonic expression images (BDGP data) • FBgn0004567 FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0004567 GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies • FBgn0004567 GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data • FBgn0004567 InParanoid orthologs - Eukaryotic orthologs • ENSANGP00000025119 Anopheles gambiae (Ensembl) ENSCAFP00000029496 Canis familiaris (Ensembl) NEWSINFRUP00000178640 Takifugu rubripes (Ensembl)