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Gene Dmel\sli

General Information
Symbol	Dmel\sli	Species	D. melanogaster
Name	slit	Annotation symbol	CG8355
Feature type	protein_coding_gene	FlyBase ID	FBgn0003425
Created / Updated	2003-12-02/2007-03-20
Genomic Location
Chromosome (arm)	2R	Recombination map	2-77
Cytogenetic map	52C9-52D1	Sequence location	2R:11,760,176..11,809,623 [-]
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 slit is referred to in FlyBase by the symbol sli (CG8355, FBgn0003425). It has the cytological map location 52C9-52D1. Its sequence location is 2R:11760176..11809623. Its molecular function is described as: receptor binding; protein binding; calcium ion binding. It is involved in the biological processes described with 15 unique terms, many of which group under: anatomical structure development; cell motility; neuron differentiation; cell projection organization and biogenesis; open tracheal system development; gliogenesis; organ development; taxis; regulation of biological process; embryonic heart tube development; regulation of cell-cell adhesion; locomotory behavior; organ morphogenesis. 43 alleles are reported. The phenotypes of these alleles are annotated with 96 unique terms, many of which group under: embryonic neuron; embryonic nervous system; nervous system; organ system; VUM1 neuron; peripheral nervous system; embryonic/larval tracheal system; VUM2 neuron; commissure; abdominal oblique muscle. It has 5 annotated transcripts and 5 annotated polypeptides.
External Summaries
Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage	sli: slit Homozygotes die as embryos. Head involution abnormal. In the ventral nervous system, transverse commissures lacking entirely. Midline neurons and supportive mesectodermal cells missing. Gene expression confined to ectoderm in cellular blastoderm (i.e., no expression in presumptive mesoderm) and to the midline neuroepithelium at gastrulation. Antibodies raised against a TrpE fusion protein fail to stain mutant embryos. More severe abnormality in Df/sli than sli/sli indicates that sli is hypomorphic in nature. In combination with Pc-like mutants abdominal transformations occur (Jurgens).
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 52C9-52D1   Limits computationally determined from genome sequence between P{lacW}l(2)k05713k05713 and P{lacW}l(2)k02205k02205&P{PZ}sli05248
Experimentally Determined Cytological Location
Cytogenetic map Notes References 52D-52D   (Kidd, 1999.2.3) 52D1-52D2 (determined by in situ hybridisation)   (Spradling et al., 1999) 52D1-52D2   (BDGP Project Members, 1994-1999) 52D-52D (determined by in situ hybridisation)   (Rothberg et al., 1990) 52D-52D (determined by in situ hybridisation)   (Rothberg et al., 1988) 52E-52E (determined by in situ hybridisation)   (Knust et al., 1987)
Experimentally Determined Recombination Data
Location	2-77 (Tearle and Nusslein-Volhard, 1987) 2- (Kolodziej et al., 1995)
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\sli for information on other features
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) sli-RA FBtr0087302  NM_057380   6308   1480 sli-RB FBtr0087304  NM_057381   6275   1469 sli-RC FBtr0087303  NM_057379   6380   1504 sli-RD FBtr0112831  NM_001103863   6046   1480 sli-RE FBtr0112832  NM_001103864   6118   1504
Additional Transcript Data & Comments
Reported size (kB)	4.515 (longest cDNA) (Kidd et al., 1999) 9.0 (northern blot) (Rothberg et al., 1990)
Comments	The two sli transcripts differ by 33 bp. (Rothberg et al., 1990, Rothberg et al., 1990)
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kD) Length (aa) Theoretical pI RefSeq ID GenBank protein sli-PA   FBpp0086437   165.9   1480   7.37     NP_476728   AAF58098 sli-PB   FBpp0086439   164.8   1469   7.44     NP_476729   AAM70966 sli-PC   FBpp0086438   168.6   1504   7.48     NP_476727   AAF58097 sli-PD   FBpp0111744   165.9   1480   7.37     NP_001097333   ABV53816 sli-PE   FBpp0111745   168.6   1504   7.48     NP_001097334   ABV53817
Additional Polypeptide Data & Comments
Reported size (kD)	1480, 1469 (aa); 200 (kD observed); 166 (kD predicted) (Rothberg et al., 1990) 1504 (aa) (Kidd et al., 1999)
Comments	Like its mammalian counterparts, the full-length sli protein may be proteolytically processed to give a 55-60 kD C-terminal fragment and a 140 kD N-terminal fragment. (Brose et al., 1999)
External Data
Linkouts	PANTHER - Protein classification by function, families, and pathways • FBgn0003425
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Aspartic acid and asparagine hydroxylation site (IPR000152) Leucine-rich repeat, cysteine-rich flanking region, N-terminal (IPR000372) Cysteine-rich flanking region, C-terminal (IPR000483) EGF-like, type 3 (IPR000742) Leucine-rich repeat (IPR001611) Laminin G (IPR001791) EGF-like calcium-binding (IPR001881) Leucine-rich repeat, typical subtype (IPR003591) Cystine knot, C-terminal (IPR006207) EGF-like (IPR006209) EGF (IPR006210) Concanavalin A-like lectin/glucanase (IPR008985) Laminin G, subdomain 1 (IPR012679) EGF-like region, conserved site (IPR013032) Concanavalin A-like lectin/glucanase, subgroup (IPR013320)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AC005556   AE003809 AAF58097   AE003809 AAF58098   AE003809 AAM70966   AF126540 AAD26567   AI519713   AQ025633   BG638950   BT025961   CO189797   CO266847   CO294680   CO295066   CO309333   CO324760   CO327815   CO340556   CO344100   CZ469127   DQ327801   DQ327802   EC059965   EC063897   EC075784   EC235302   EC244994   EC247489   EC259151   EC259637   EC260260   EL884991   EL885115   EL885242   LD39407   M23543 AAA72722   X53959 CAA37910   Z50269
UniProtKB/Swiss-Prot	P24014
UniProtKB/TrEMBL
Maps to	DS08658 (FlyBase, 1992-)
Does NOT map to
Identified with	D1220 (BDGP Project Members, 1994-1999)
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 deletion sli[GA20] 2R:11,763,697..11,763,697 comment=A one base deletion leads to early translation termination. evidence=experimental pr_change=L837|sli-PC,L813|sli-PB,L813@|sli-PA reported_pr_change=L?@ (Battye et al., 2001) deletion sli[550] 2R:11,762,570..11,762,570 comment=A one base deletion causes a frameshift at P1191 or P1167 depending on the isoform and leads to early translation termination. evidence=experimental (Battye et al., 2001) point mutation sli[GA178] 2R:11,773,813..11,773,813 evidence=experimental na_change=C11773813G pr_change=Q108E|sli-PA,Q108E|sli-PC,Q108E|sli-PB,Q108E|s li-PD,Q108E|sli-PE reported_na_change=C329G reported_pr_change=Q?E (Battye et al., 2001) point mutation sli[532] 2R:11,767,576..11,767,576 evidence=experimental na_change=C11767576T pr_change=A450V|sli-PA,A474V|sli-PC,A450V|sli-PB,A450V|s li-PD,A474V|sli-PE reported_na_change=C1428T reported_pr_change=A?V (Battye et al., 2001) point mutation sli[1912] 2R:11,763,033..11,763,033 evidence=experimental na_change=C11763033T pr_change=Q1013|sli-PA,Q1037|sli-PC,Q1013|sli-PB,Q101 3|sli-PD,Q1037@|sli-PE reported_na_change=C3117T reported_pr_change=Q?@ (Battye et al., 2001) point mutation sli[2] 2R:11,763,000..11,763,000 evidence=experimental na_change=A11763000T pr_change=K1024|sli-PA,K1048|sli-PC,K1024|sli-PB,K102 4|sli-PD,K1048@|sli-PE reported_na_change=A3150T reported_pr_change=K?@ (Battye et al., 2001)
External Data
Linkouts	DEDB - Drosophila exon database: splicing graphs • 12360
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 | extended germ band stage  mesectoderm <of> ventral midline (Rothberg et al., 1990)  embryonic stage | stage 17  neuropil (Rothberg et al., 1988)  embryonic stage | stage 15  cardioblast (Rothberg et al., 1990)  embryonic stage | stage 10  ectoderm | lateral (Rothberg et al., 1988)  embryonic stage | stage 13  embryonic central nervous system | restricted (Rothberg et al., 1988)  embryonic stage | gastrulation   (Rothberg et al., 1990)  embryonic stage | stage 6  ectoderm | presumptive (Rothberg et al., 1988)  embryonic stage | contracted germ band stage  midline glial cell (Rothberg et al., 1990)
Marker for
Subcellular Localization
CV Term
Summary of Polypeptide Expression
Stage Tissue/Position Reference  embryonic stage | gastrulation   (Rothberg et al., 1990)  embryonic stage | extended germ band stage  mesectoderm <of> ventral midline (Rothberg et al., 1990)  embryonic stage | stage 15  cardioblast (Rothberg et al., 1990)  embryonic stage | stage 15  cardioblast (Rothberg et al., 1990)  embryonic stage | contracted germ band stage  midline glial cell (Rothberg et al., 1990)  embryonic stage | contracted germ band stage  midline glial cell (Rothberg et al., 1990)  embryonic stage | contracted germ band stage  axon <of> embryonic central nervous system (Rothberg et al., 1988)  embryonic stage | extended germ band stage  mesectoderm <of> ventral midline (Rothberg et al., 1990)  embryonic stage | stage 13-16  ventral midline (Parsons et al., 2003)  embryonic stage | gastrulation   (Rothberg et al., 1990)  embryonic stage | extended germ band stage  ventral midline (Rothberg et al., 1988)  embryonic stage | stage 13-15  epidermis | dorsal & lateral (Parsons et al., 2003)  embryonic stage | contracted germ band stage  longitudinal connectives | restricted (Rothberg et al., 1988)
Marker for
Subcellular Localization
CV Term	plasma membrane (Rothberg et al., 1988) extracellular matrix (Rothberg et al., 1990) extracellular matrix (Rothberg et al., 1990)
Microarray Data
	Developmental timecourse, Costello et al., 2008 (Original data from Arbeitman et al., 2002) AI519713
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0003425 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • FBgn0003425 GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies • FBgn0003425
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable slik04807b lethal | recessive sli05248 sli1912 sli2990 sli2 sli3149 sli532 sli550 sliE-158 sliF119 sliF81 sliGA178 sliGA20 sliGA945 lethal | embryonic stage | recessive sliunspecified Other Phenotypes Allele cell shape defective | recessive sli2 cell polarity defective | recessive sli2 cytokinesis defective sliunspecified neuroanatomy defective sli2 sliE-158 slidsRNA.cIa slik04807b sliunspecified neuroanatomy defective (with Df(2R)Jp1) sliunspecified neuroanatomy defective (with Df(2R)Jp4) sliunspecified neuroanatomy defective (with Df(2R)XTE-18) sliunspecified neuroanatomy defective (with sli2) slik04807b neuroanatomy defective (with sliE-158) slik04807b neuroanatomy defective (with sli05248) slik04807b neuroanatomy defective (with slik04807b) sli05248 sli2 sliE-158 neuroanatomy defective | dominant sli2 neuroanatomy defective | embryonic stage sli2 Phenotype manifest in Allele ventral nerve cord, with Scer\GAL4sli.PS sliΔE2-E6.Scer\UAS sliΔG-E7.Scer\UAS sliScer\UAS.cBa ventral nerve cord, with Scer\GAL4elav-C155 sliΔE2-E6.Scer\UAS sliΔG-E7.Scer\UAS sliScer\UAS.cBa ventral nerve cord, with Scer\GAL4en-e16E sliΔE2-E6.Scer\UAS sliΔG-E7.Scer\UAS sliScer\UAS.cBa eye photoreceptor cell & axon (with slik04807b) sli05248 sli2 sliE-158 lamina anlage (with slik04807b) sli05248 sli2 sliE-158 embryonic central nervous system sli1 sli2 sliE-158 sliunspecified ventral nerve cord sli1912 sli2 sli2990 sli3149 sli532 sli550 sliE-158 sliF119 sliF81 sliGA178 sliGA20 sliGA945 longitudinal connective sli1912 sli2 sli3149 sli532 sli550 sliE-158 sliF119 sliGA945 sliunspecified ventral oblique muscle sli1912 sli2 sli532 abdominal ventral longitudinal muscle 3, with Scer\GAL4how-24B, sliScer\UAS.cKa sli2 abdominal ventral longitudinal muscle 4, with Scer\GAL4how-24B, sliScer\UAS.cKa sli2 abdominal lateral oblique muscle 1, with Scer\GAL4how-24B, sliScer\UAS.cKa sli2 abdominal lateral longitudinal muscle 1, with Scer\GAL4how-24B, sliScer\UAS.cKa sli2 abdominal dorsal acute muscle 1, with Scer\GAL4en-e16E, sliScer\UAS.cKa sli2 abdominal dorsal acute muscle 2, with Scer\GAL4en-e16E, sliScer\UAS.cKa sli2 abdominal dorsal oblique muscle 1, with Scer\GAL4en-e16E, sliScer\UAS.cKa sli2 abdominal dorsal oblique muscle 2, with Scer\GAL4en-e16E, sliScer\UAS.cKa sli2 abdominal dorsal acute muscle 1, with Scer\GAL4sim.P3.7, sliScer\UAS.cKa sli2 abdominal dorsal acute muscle 2, with Scer\GAL4sim.P3.7, sliScer\UAS.cKa sli2 abdominal dorsal oblique muscle 1, with Scer\GAL4sim.P3.7, sliScer\UAS.cKa sli2 abdominal dorsal oblique muscle 2, with Scer\GAL4sim.P3.7, sliScer\UAS.cKa sli2 embryonic/larval somatic muscle | ectopic, with Scer\GAL4sim.P3.7, sliScer\UAS.cKa sli2 abdominal ventral longitudinal muscle 3, with Scer\GAL4sim.P3.7, sliScer\UAS.cKa sli2 abdominal ventral longitudinal muscle 4, with Scer\GAL4sim.P3.7, sliScer\UAS.cKa sli2 abdominal lateral oblique muscle 1, with Scer\GAL4sim.P3.7, sliScer\UAS.cKa sli2 lamina neuropil (with slik04807b) sli2 lamina anlage glial cell (with slik04807b) sli2 lch5 neuron sli2 dorsal cluster neuron sli2 embryonic spiracular branch sli2 embryonic transverse connective sli2 motor neuron sli2 lesA neuron sli2 lateral multidendritic neuron ldaA sli2 abdominal ventral multidendritic neuron sli2 embryonic/larval somatic muscle | ventral sli2 anterior commissure sli2 sliGA945 posterior commissure sli2 sliGA945 midline glial cell sli2 sliunspecified MP1 neuron sli2 abdominal 1 VUM1 neuron sli2 abdominal 2 VUM1 neuron sli2 abdominal 3 VUM1 neuron sli2 abdominal 4 VUM1 neuron sli2 abdominal 5 VUM1 neuron sli2 abdominal 6 VUM1 neuron sli2 abdominal 7 VUM1 neuron sli2 abdominal 1 VUM2 neuron sli2 abdominal 2 VUM2 neuron sli2 abdominal 3 VUM2 neuron sli2 abdominal 4 VUM2 neuron sli2 abdominal 5 VUM2 neuron sli2 abdominal 6 VUM2 neuron sli2 abdominal 7 VUM2 neuron sli2 abdominal 1 VUM3 neuron sli2 abdominal 2 VUM3 neuron sli2 abdominal 3 VUM3 neuron sli2 abdominal 4 VUM3 neuron sli2 abdominal 5 VUM3 neuron sli2 abdominal 6 VUM3 neuron sli2 abdominal 7 VUM3 neuron sli2 neuroblast MNB sli2 ganglion mother cell GMC1-1a sli2 sliGA20 sliunspecified RP2 neuron | ectopic sli2 sliGA20 sliunspecified RP2 neuron sli2 sliGA20 RP2sib neuron sli2 sliGA20 sliunspecified aCC neuron sli2 sliGA20 embryonic salivary gland sli2 pCC neuron sli2 sliGA20 SP1 neuron sli2 embryonic muscle system sli2 fascicle sli2 sliunspecified lateral longitudinal fascicle sli2 intermediate longitudinal fascicle sli2 medial longitudinal fascicle sli2 chordotonal organ & embryo & nerve terminal sli2 ventral midline sli2 abdominal ventral longitudinal muscle 3 sli2 abdominal ventral longitudinal muscle 4 sli2 abdominal ventral longitudinal muscle 2 sli2 abdominal lateral oblique muscle 1 sli2 chordotonal organ & axon | lateral sli2