• Home
• Tools
  • Tools Overview
  • Query Tools

    
    • QuickSearch
    • QueryBuilder
    • TermLink
    • CytoSearch
    • Interactions Browser
    • ImageBrowse
    • Find A Person
    • Google™ FlyBase
  • Genomic/Map Tools

    
    • BLAST
    • GBrowse
    • CytoSearch
    • Aberrations Maps
    • Chromosome Maps
    • Coordinates Converter
  • Retrieve/Convert

    
    • Batch Download
    • Coordinates Converter
    • ID Converter
  • Data Submission

    
    • Fast-Track Your Paper
    • Submit Personal Comm
    • Add A New Person
    • Update Person Info
  • People

    
    • Find A Person
    • Add A New Person
    • Update Person Info
• Files
  • Files Overview
  • Downloads:
  • Precomputed files
  • Archived data
  • Releases (FTP)
  • Genomes (FTP)
  • AAA data (FTP)
  • Lists:
  • Transposons (Dmel)
  • Transposons (other)
  • Vectors & Constructs
  • Anatomical Terms
  • Map Conversion
• Species
  • Phylogeny
  • Sequenced Species
  • Synteny Table
  • Color Illustrations
  • Abbreviations
• Documents
  • About FlyBase
  • Reference Manual:
  • Sections
  • Contents
  • Nomenclature
  • Release Notes
• Resources
  • All Resources
  • Model Organisms
  • Stock Collections
  • Other links:
  • BDGP
  • DGRC
  • FlyExpress
  • Interactive Fly
  • modENCODE
  • Textpresso for Fly
• News
  • News
  • FlyBase Forum
  • FlyBase Positions
  • Meetings
  • Courses
  • Fly Board
  • White papers
  • Funding
  • bionet.dros
• Help
  • Google™ FlyBase
  • Site Map
  • FAQs
  • FlyBase Guides
  • Video Tutorials
  • Report help
  • New to Flies
  • Pers. comm.
  • Author guidelines
  • Contact FlyBase
• Archives
  • Prior Release
  • Other Archives
  • Coordinate Converter

Gene Dmel\seq

General Information
Symbol	Dmel\seq	Species	D. melanogaster
Name	sequoia	Annotation symbol	CG32904
Feature type	protein_coding_gene	FlyBase ID	FBgn0028991
Gene Model Status	Current	Stock availability	6 publicly available
Also Known As	vr5
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	49F4-49F7	Sequence location	2R:9,066,673..9,077,579 [-]
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 sequoia is referred to in FlyBase by the symbol Dmel\seq (CG32904, FBgn0028991). It is a protein_coding_gene from Drosophila melanogaster. An electronic pipeline based on InterPro domains suggests that it has the molecular function: zinc ion binding; nucleic acid binding. There is experimental evidence that it is involved in the biological process: negative regulation of axon extension; axon guidance; sensory organ development; dendrite morphogenesis; terminal cell fate specification, open tracheal system; branching involved in open tracheal system development; negative regulation of transcription from RNA polymerase II promoter; axonogenesis. 20 alleles are reported. The phenotype of these alleles is annotated with: embryonic/larval ganglionic branch. It has one annotated transcript and one annotated polypeptide. Protein features are: Zinc finger, C2H2; Zinc finger, C2H2-like; Zinc finger, C2H2-type/integrase, DNA-binding. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of low expression. Peak expression observed within 06-12 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Two or more Affy2 ProbeSets identify exons of this gene. This is a summary of the tissue expression peaks exhibited in at least one of these ProbeSets. Expression at moderate levels in the following post-embryonic organs or tissues: adult eye, larval central nervous system, adult midgut, larval trachea. Gene sequence location is 2R:9066673..9077579.
External Summaries
Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage	l(2)49Fc Embryonic lethal.
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	References Knowles-Barley, 2011.8.24, BrainTrap expression curation.
FB2012_01	Clones EK093237 CK01.122A.B2 Sequence features HFA06863 BKN30218 Controlled Vocabulary Terms negative regulation of transcription from RNA polymerase II promoter
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 49F4-49F7
Experimentally Determined Cytological Location
Cytogenetic map Notes References 49C-50D   Determined by deficiency mapping (details unspecified).   (Gao et al., 1999)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\seq for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Gene model reviewed during 5.43 Shares 5' UTR with upstream gene; also shares UTR sequences with downstream gene. Translation stop occurs in exon shared by overlapping gene (Kdm4B); use of multiphasic reading frames within this exon.
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) seq-RA FBtr0100501  NM_001032244   4101   882
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein seq-PA   FBpp0099939   96.5   882   5.55     NP_001027415   AAZ52808
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Zinc finger, C2H2-like (IPR015880) Zinc finger, C2H2 (IPR007087) Zinc finger, C2H2-type/integrase, DNA-binding (IPR013087)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE013599 AAZ52808   AF421370 AAL27368   AI405501   BG640032   BT003592   BT010072   BT030245   BT030821   BT082008   BT132648   CO186421   CO268982   CO278764   CO314926   CO323268   CO327454   CO329855   CO333110   EC061006   EC086117   EC208580   EC214297   EC217621   EC228281   EC250715   EC256217   EC257708   EL872850   ES690916   EV578838   EV579096   GH749101   GH809302   GH817994   GH824462   GH870786   GH871905   GH941631   GH946726   GH951165   GH953902   GH956216   GH957052   GH964818   GH965051   GH969018   GH971333   GH972314   GH975478   GH976954   GH977183   GH981161   GH984181
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q95V81 A1Z995
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 3 -- 16   nervous system   (Brenman et al., 2001)
Additional Descriptive Data
	Transcript is first detected in stage 3/4 embryos in the developing nervous system and remains present througout embryonic development. (Brenman et al., 2001)
Marker for
Subcellular Localization
CV Term
Notes
Polypeptide Expression
immunolocalization Stage Tissue/Position (including subcellular localization) Reference embryonic stage 3 -- 16   nervous system & neuron & thecogen cell   • nucleus (Brenman et al., 2001) adult stage   head & neuron   • nucleus (Brenman et al., 2001)
Additional Descriptive Data
	Protein is detected in embryos from stage 3/4 on in the nuclei of neurons and sheath cells of the developing nervous system. Pan-neural nuclear protein is also detected in the adult head including the photoreceptor cells. (Brenman et al., 2001)
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 FBgn0028991    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0028991 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 very high expression to a trough of low expression. Peak expression observed within 06-12 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 FBgn0028991 expression level Developmental Stage   Expression Level embryo 00-02hr    1382 embryo 02-04hr    3044 embryo 04-06hr    5358 embryo 06-08hr    10215 embryo 08-10hr    6845 embryo 10-12hr    3898 embryo 12-14hr    3448 embryo 14-16hr    4864 embryo 16-18hr    2926 embryo 18-20hr    2729 embryo 20-22hr    1969 embryo 22-24hr    1414 larva L1    1674 larva L2    451 larva L3 12hr old    383 larva L3 puffstage 1-2    379 larva L3 puffstage 3-6    1257 larva L3 puffstage 7-9    1127 white prepupae new    1248 white prepupae 12hr    1552 white prepupae 24hr    1770 pupae 2d postWPP    1198 pupae 3d postWPP    598 pupae 4d postWPP    714 adult male 01day    775 adult male 05day    1084 adult male 30day    1354 adult female 01day    1009 adult female 05day    728 adult female 30day    827 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (1382) embryo 02-04hr  (3044) embryo 04-06hr  (5358) embryo 06-08hr  (10215) embryo 08-10hr  (6845) embryo 10-12hr  (3898) embryo 12-14hr  (3448) embryo 14-16hr  (4864) embryo 16-18hr  (2926) embryo 18-20hr  (2729) embryo 20-22hr  (1969) embryo 22-24hr  (1414) larva L1  (1674) larva L2  (451) larva L3 12hr old  (383) larva L3 puffstage 1-2  (379) larva L3 puffstage 3-6  (1257) larva L3 puffstage 7-9  (1127) white prepupae new  (1248) white prepupae 12hr  (1552) white prepupae 24hr  (1770) pupae 2d postWPP  (1198) pupae 3d postWPP  (598) pupae 4d postWPP  (714) adult male 01day  (775) adult male 05day  (1084) adult male 30day  (1354) adult female 01day  (1009) adult female 05day  (728) adult female 30day  (827) Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    1382 embryo 02-04hr  (3044) embryo 04-06hr  (5358) embryo 06-08hr  (10215) embryo 08-10hr  (6845) embryo 10-12hr  (3898) embryo 12-14hr  (3448) embryo 14-16hr  (4864) embryo 16-18hr  (2926) embryo 18-20hr  (2729) embryo 20-22hr  (1969) embryo 22-24hr  1414 larva L1  (1674) larva L2    451 larva L3 12hr old    383 larva L3 puffstage 1-2    379 larva L3 puffstage 3-6    1257 larva L3 puffstage 7-9    1127 white prepupae new    1248 white prepupae 12hr  (1552) white prepupae 24hr  (1770) pupae 2d postWPP    1198 pupae 3d postWPP    598 pupae 4d postWPP    714 adult male 01day    775 adult male 05day    1084 adult male 30day    1354 adult female 01day    1009 adult female 05day    728 adult female 30day    827 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    1382 embryo 02-04hr    3044 embryo 04-06hr    5358 embryo 06-08hr  10215 embryo 08-10hr    6845 embryo 10-12hr    3898 embryo 12-14hr    3448 embryo 14-16hr    4864 embryo 16-18hr    2926 embryo 18-20hr    2729 embryo 20-22hr    1969 embryo 22-24hr    1414 larva L1    1674 larva L2    451 larva L3 12hr old    383 larva L3 puffstage 1-2    379 larva L3 puffstage 3-6    1257 larva L3 puffstage 7-9    1127 white prepupae new    1248 white prepupae 12hr    1552 white prepupae 24hr    1770 pupae 2d postWPP    1198 pupae 3d postWPP    598 pupae 4d postWPP    714 adult male 01day    775 adult male 05day    1084 adult male 30day    1354 adult female 01day    1009 adult female 05day    728 adult female 30day    827 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    1382 embryo 02-04hr    3044 embryo 04-06hr    5358 embryo 06-08hr    10215 embryo 08-10hr    6845 embryo 10-12hr    3898 embryo 12-14hr    3448 embryo 14-16hr    4864 embryo 16-18hr    2926 embryo 18-20hr    2729 embryo 20-22hr    1969 embryo 22-24hr    1414 larva L1    1674 larva L2    451 larva L3 12hr old    383 larva L3 puffstage 1-2    379 larva L3 puffstage 3-6    1257 larva L3 puffstage 7-9    1127 white prepupae new    1248 white prepupae 12hr    1552 white prepupae 24hr    1770 pupae 2d postWPP    1198 pupae 3d postWPP    598 pupae 4d postWPP    714 adult male 01day    775 adult male 05day    1084 adult male 30day    1354 adult female 01day    1009 adult female 05day    728 adult female 30day    827 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0028991 expression level Developmental Stage   Expression Level embryo 00-02hr    1382 embryo 02-04hr    3044 embryo 04-06hr    5358 embryo 06-08hr    10215 embryo 08-10hr    6845 embryo 10-12hr    3898 embryo 12-14hr    3448 embryo 14-16hr    4864 embryo 16-18hr    2926 embryo 18-20hr    2729 embryo 20-22hr    1969 embryo 22-24hr    1414 larva L1    1674 larva L2    451 larva L3 12hr old    383 larva L3 puffstage 1-2    379 larva L3 puffstage 3-6    1257 larva L3 puffstage 7-9    1127 white prepupae new    1248 white prepupae 12hr    1552 white prepupae 24hr    1770 pupae 2d postWPP    1198 pupae 3d postWPP    598 pupae 4d postWPP    714 adult male 01day    775 adult male 05day    1084 adult male 30day    1354 adult female 01day    1009 adult female 05day    728 adult female 30day    827 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (1382) embryo 02-04hr  (3044) embryo 04-06hr  (5358) embryo 06-08hr  (10215) embryo 08-10hr  (6845) embryo 10-12hr  (3898) embryo 12-14hr  (3448) embryo 14-16hr  (4864) embryo 16-18hr  (2926) embryo 18-20hr  (2729) embryo 20-22hr  (1969) embryo 22-24hr  (1414) larva L1  (1674) larva L2  (451) larva L3 12hr old  (383) larva L3 puffstage 1-2  (379) larva L3 puffstage 3-6  (1257) larva L3 puffstage 7-9  (1127) white prepupae new  (1248) white prepupae 12hr  (1552) white prepupae 24hr  (1770) pupae 2d postWPP  (1198) pupae 3d postWPP  (598) pupae 4d postWPP  (714) adult male 01day  (775) adult male 05day  (1084) adult male 30day  (1354) adult female 01day  (1009) adult female 05day  (728) adult female 30day  (827) Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    1382 embryo 02-04hr  (3044) embryo 04-06hr  (5358) embryo 06-08hr  (10215) embryo 08-10hr  (6845) embryo 10-12hr  (3898) embryo 12-14hr  (3448) embryo 14-16hr  (4864) embryo 16-18hr  (2926) embryo 18-20hr  (2729) embryo 20-22hr  1969 embryo 22-24hr  1414 larva L1  1674 larva L2    451 larva L3 12hr old    383 larva L3 puffstage 1-2    379 larva L3 puffstage 3-6    1257 larva L3 puffstage 7-9    1127 white prepupae new    1248 white prepupae 12hr  1552 white prepupae 24hr  1770 pupae 2d postWPP    1198 pupae 3d postWPP    598 pupae 4d postWPP    714 adult male 01day    775 adult male 05day    1084 adult male 30day    1354 adult female 01day    1009 adult female 05day    728 adult female 30day    827 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    1382 embryo 02-04hr    3044 embryo 04-06hr    5358 embryo 06-08hr  10215 embryo 08-10hr    6845 embryo 10-12hr    3898 embryo 12-14hr    3448 embryo 14-16hr    4864 embryo 16-18hr    2926 embryo 18-20hr    2729 embryo 20-22hr    1969 embryo 22-24hr    1414 larva L1    1674 larva L2    451 larva L3 12hr old    383 larva L3 puffstage 1-2    379 larva L3 puffstage 3-6    1257 larva L3 puffstage 7-9    1127 white prepupae new    1248 white prepupae 12hr    1552 white prepupae 24hr    1770 pupae 2d postWPP    1198 pupae 3d postWPP    598 pupae 4d postWPP    714 adult male 01day    775 adult male 05day    1084 adult male 30day    1354 adult female 01day    1009 adult female 05day    728 adult female 30day    827 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    1382 embryo 02-04hr    3044 embryo 04-06hr    5358 embryo 06-08hr    10215 embryo 08-10hr    6845 embryo 10-12hr    3898 embryo 12-14hr    3448 embryo 14-16hr    4864 embryo 16-18hr    2926 embryo 18-20hr    2729 embryo 20-22hr    1969 embryo 22-24hr    1414 larva L1    1674 larva L2    451 larva L3 12hr old    383 larva L3 puffstage 1-2    379 larva L3 puffstage 3-6    1257 larva L3 puffstage 7-9    1127 white prepupae new    1248 white prepupae 12hr    1552 white prepupae 24hr    1770 pupae 2d postWPP    1198 pupae 3d postWPP    598 pupae 4d postWPP    714 adult male 01day    775 adult male 05day    1084 adult male 30day    1354 adult female 01day    1009 adult female 05day    728 adult female 30day    827 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 FBgn0028991    Styles Linear Logarithmic Heatmap Back-to-back    Scales max expr for FBgn0028991 Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Two or more Affy2 ProbeSets identify exons of this gene. This is a summary of the tissue expression peaks exhibited in at least one of these ProbeSets. Expression at moderate levels in the following post-embryonic organs or tissues: adult eye, larval central nervous system, adult midgut, larval trachea. [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) Heatmap Tissue   Expression Level Larval Central Nervous System no informative data Larval Midgut no informative data Larval Hindgut     Larval Malpighian Tubules no informative data Larval Fat Body     Larval Salivary Gland     Larval Trachea no informative data Larval Carcass     Adult Head     Adult Eye no informative data Adult Brain no informative data Adult Thoracic-Abdominal Ganglion no informative data Adult Crop no informative data Adult Midgut no informative data Adult Hindgut no informative data Adult Malpighian Tubules no informative data Adult Fat Body no informative data Adult Salivary Gland     Adult Heart no informative data Adult VirginFemale Spermatheca no informative data Adult InseminatedFemale Spermatheca no informative data Adult Ovary no informative data Adult Testis no informative data Adult Male Accessory Gland no informative data Adult Carcass     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 • FBgn0028991 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • LD12453;LD12453
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal (with seq22), with Scer\GAL4[-]: seqEP728 lethal (with seqEP728), with Scer\GAL4[-]: seq22 seqvr5-5 lethal (with seqvr5-5), with Scer\GAL4[-]: seqEP728 lethal | embryonic stage seqvr5-5 lethal | embryonic stage (with Df(2R)Exel8057) seqA41 seqU5 lethal | embryonic stage (with seqA41) seqU5 lethal | embryonic stage (with seqU5) seqA41 lethal | embryonic stage | recessive seqA41 seqN22 seqQ8 seqR1 seqU5 lethal | recessive seqvr5-5 seqvr5-40 seqvr5-48 Other Phenotypes Allele neuroanatomy defective seq22 seqdsRNA.cIa neuroanatomy defective | somatic clone | third instar larval stage seqA436 seqG25 Phenotype manifest in Allele axon & embryonic central nervous system seq22 axon | dorsal | embryonic stage seq22 chaeta | somatic clone seq22 seqA41 seqN22 seqU5 seqR1 seqQ8 chordotonal organ & neuron & embryo seq22 dendrite | dorsal | embryonic stage seq22 dendrite | embryonic stage | lateral seq22 embryonic/larval ganglionic branch seqZ1241 seqC022 embryonic/larval ganglionic branch, with Scer\GAL4elav-C155, Scer\GAL4sca-109-68 seqScer\UAS.cBa embryonic/larval ganglionic branch (with seqC022) seqZ1241 embryonic/larval ganglionic branch (with seqZ1241) seqC022 embryonic central nervous system & axon seq22 embryonic peripheral nervous system & axon seq22 embryonic peripheral nervous system & multidendritic dendrite | ectopic seq22 embryonic peripheral nervous system & multidendritic neuron seq22 embryonic peripheral nervous system & multidendritic neuron | supernumerary seq22 embryonic peripheral nervous system & sensory neuron seq22 mesothoracic tergum & adult peripheral nervous system & sensory neuron | somatic clone seq22 motor neuron & axon & embryo seq22 multidendritic neuron & dendrite & embryo seq22 photoreceptor cell & axon | somatic clone seq22 presumptive embryonic/larval peripheral nervous system | dorsal seq22 scutellum & adult peripheral nervous system & sensory neuron | somatic clone seq22 socket | somatic clone seq22 seqA41 seqN22 seqU5 seqR1 seqQ8
Classical Alleles ( 18 )
For All Classical Alleles Show
Allele of seq Class Mutagen Stocks Known lesion seqKG01231 2 -- seqvr5-5 ethyl methanesulfonate 2 Yes seqvr5-48 ethyl methanesulfonate 1 -- seq22 hypomorphic allele - genetic evidence ethyl methanesulfonate 0 Yes seqA41 0 Yes seqA436 ethyl methanesulfonate 0 Yes seqC022 ethyl methanesulfonate 0 -- seqCPTI001516 piggyBac transposase 0 Yes seqEP728 0 Yes seqG25 ethyl methanesulfonate 0 Yes seqN22 0 Yes seqQ8 0 Yes seqR1 0 Yes seqU5 0 Yes seqvr4-32 ethyl methanesulfonate 0 -- seqvr4-57 ethyl methanesulfonate 0 -- seqvr5-40 ethyl methanesulfonate 0 -- seqZ1241 ethyl methanesulfonate 0 --
Alleles Carried on Transgenic Constructs ( 2 )
For All Alleles Carried on Transgenic Constructs Show
Allele of seq Class Mutagen Stocks Known lesion seqScer\UAS.cBa in vitro construct - regulatory fusion 1 Yes seqdsRNA.cIa in vitro construct - RNAi 0 Yes
Aneuploid Aberrations
Disrupted in	Df(2R)CX1 (Brenman et al., 2001) Df(2R)Exel8057 (Andrews et al., 2009) Df(2R)vg33 (Lasko and Pardue, 1988) Df(2R)vg56 (Lasko and Pardue, 1988, Hao et al., 1995) Df(2R)vg104 (Lasko and Pardue, 1988, Hao et al., 1995) Df(2R)vg106 (Lasko and Pardue, 1988, Hao et al., 1995) Df(2R)vg-B (Brenman et al., 2001, Lasko and Pardue, 1988, Wu and Howe, 1995, Hao et al., 1995) Df(2R)vg-P2 (Lasko and Pardue, 1988, Hao et al., 1995)
Not disrupted in	Df(2R)R7 (Lasko and Pardue, 1988) Df(2R)Su(z)2-1.a6 (Wu and Howe, 1995) Df(2R)Su(z)2-1.b8 (Wu and Howe, 1995) Df(2R)Su(z)25 (Wu and Howe, 1995) Df(2R)Su(z)3-1.iy (Wu and Howe, 1995) Df(2R)Su(z)3-1.jtg (Wu and Howe, 1995) Df(2R)trix (Brenman et al., 2001) Df(2R)vg62 (Lasko and Pardue, 1988, Wu and Howe, 1995) Df(2R)vg79b3 (Lasko and Pardue, 1988) Df(2R)vg79d8 (Lasko and Pardue, 1988) Df(2R)vg81 (Lasko and Pardue, 1988) Df(2R)vg83f15 (Lasko and Pardue, 1988) Df(2R)vg107 (Lasko and Pardue, 1988) Df(2R)vg120 (Lasko and Pardue, 1988) Df(2R)vg124 (Lasko and Pardue, 1988) Df(2R)vg133 (Lasko and Pardue, 1988) Df(2R)vg135 (Lasko and Pardue, 1988) Df(2R)vg136 (Lasko and Pardue, 1988, Hao et al., 1995) Df(2R)vg-C (Brenman et al., 2001, Lasko and Pardue, 1988) Df(2R)vg-D (Lasko and Pardue, 1988, Wu and Howe, 1995) In(2LR)vg79a (Lasko and Pardue, 1988)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD8607} NA P{GD16445} NA P{UAS-seq.B} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EP}Kdm4BEP728 NA insertion of enhancer trap P{lacW}l(2)SH1898SH1898 No miscellaneous insertions P{SUPor-P}seqKG01231 NA PBac{681.P.FSVS-1}seqCPTI001516 NA
Gene Ontology: Function, Process & Cellular Component ( 11 unique terms )
Terms Based on Experimental Evidence ( 9 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
axon guidance inferred from mutant phenotype (Berger et al., 2008) axonogenesis inferred from mutant phenotype (Brenman et al., 2001) branching involved in open tracheal system development inferred from mutant phenotype (Araújo and Casanova, 2011) dendrite morphogenesis inferred from mutant phenotype (Gao et al., 1999, Brenman et al., 2001, Parrish et al., 2006) negative regulation of axon extension inferred from mutant phenotype (Brenman et al., 2001) negative regulation of transcription from RNA polymerase II promoter inferred from mutant phenotype (Araújo and Casanova, 2011) sensory organ development inferred from mutant phenotype (Andrews et al., 2009) terminal cell fate specification, open tracheal system inferred from mutant phenotype (Araújo and Casanova, 2011)
Cellular Component
CV term Evidence References
nucleus inferred from direct assay (Araújo and Casanova, 2011)
Terms Based on Predictions or Assertions ( 4 terms )
Molecular Function
CV term Evidence References
nucleic acid binding inferred from electronic annotation with InterPro:IPR013087 (FlyBase Curators et al., 2004-) zinc ion binding inferred from electronic annotation with InterPro:IPR007087, InterPro:IPR015880 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
dendrite morphogenesis traceable author statement (Grueber and Jan, 2004)
Cellular Component
CV term Evidence References
nucleus traceable author statement (Gao and Bogert, 2003)
Sequence Ontology: Class of Gene
	gene_with_dicistronic_primary_transcript (FlyBase Genome Annotators, 2002-2003) 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 seq allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 533993 DroID - A comprehensive database of gene and protein interactions. • FBgn0028991 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 3772396
Orthologs
Genome-wide drosophilid orthologs	Dana\GF12968 Dere\GG22521 Dgri\GH24957 Dmoj\GI18398 Dper\GL17674 Dpse\GA24868 Dsec\GM20307 Dsim\GD25786 Dvir\GJ21476 Dwil\GK21397 Dyak\GE13393
Curated drosophilid orthologs
Linkouts	OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • FBgn0231072 FBgn0223389 FBgn0208602 FBgn0197067 FBgn0175190 FBgn0246253 FBgn0155277 FBgn0141137 FBgn0132412 FBgn0114692 FBgn0090002
Stocks & Reagents
Stocks Listed in FlyBase ( 6 )
Bloomington	9244 w*; P{UAS-seq.B}3 14889 y1; P{SUPor-P}seqKG01231/SM6a; ry506 5559 al1 b1 seqvr5-5 c1 sp1/SM5 5560 al1 b1 seqvr5-48 c1 sp1/SM5
Kyoto	108298 al1 b1 seqvr5-5 c1 sp1/CyO 114398 yd2 w1118 P{ey-FLP.N}2; P{neoFRT}42D P{SUPor-P}seqKG01231 /CyO y+
Genomic Clones ( 2 )
	BACR05M17 BACR48I10 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 52 )
	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	HL08087 LD07176 LD12453
Other clones	DPiM_HL08087 IP01972 IP18301 MIP04757
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	GH25520
Other clones	15488 64127 118991 191251 214283.39 214417.34 280992 CK01.21A.E8 CK01.122A.B2 Dmel_dig_002877_0691_2556 Dmel_dig_007305_0608_2519 EK019452 EK093237 EK131513 EK190056 EK238414 EK294033 EK305735 EP07142 IP04701 RC0-DA0006-130700-021-D04 RP003058248 RP003078760 RP003192327 RP003271826 RP003281114 RP003292746 RP004066438 RP004083609 RP004122344 RP004162202 RP004201269 RP004217527 RP004233666 RP004264043 RP004299507 RP004305665 RP004342067 RP004399343 RP004414005 RP004447060 RP004496996 RP004498922 SD10649
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0028991 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 3772396
Antibody Information
	polyclonal (Brenman et al., 2001)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: seq l(2)49Fc (Brenman et al., 2001)
Additional comments	Annotation CG4037 split into CG33182, CG32904 (seq) and CG17724 in release 3 of the genome annotation. (FlyBase Genome Annotators, 2002-2003) One or more of the processed transcripts for this gene share(s) untranslated sequences with a transcript of an adjacent gene, but encode(s) a single open reading frame (ORF). The non-overlapping ORFs that share untranslated sequences are represented by seq and CG17724. (FlyBase Genome Annotators, 2002-2003)
Other Comments
	dsRNA has been made from templates generated with primers directed against this gene. seq RNAi results in overextension of ddaD and ddaE dendrites. (Parrish et al., 2006) seq mutants affect the cell fate decision of a small subset of neurons but have global effects on axon and dendrite morphologies of most and possibly all neurons. (Brenman et al., 2001) seq has a function in dendritic development. (Gao et al., 1999)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_001032244 RefSeq (Proteins) • NP_001027415 DDBJ / EMBL / GenBank • AAL27368 AAZ52808 AF421370 Entrez Gene - A searchable database of RefSeq genes. • 3772396 UniProtKB/TrEMBL • A1Z995 Q95V81
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Zinc finger, C2H2-like (IPR015880) Zinc finger, C2H2 (IPR007087) Zinc finger, C2H2-type/integrase, DNA-binding (IPR013087)
Linkouts
	BioGRID - A database of protein and genetic interactions • 533993 DroID - A comprehensive database of gene and protein interactions. • FBgn0028991 DRSC - Results from RNAi screens. • FBgn0028991 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0028991 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • LD12453;LD12453 FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0028991 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 3772396 Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /hjmuller/seqoia1.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 3772396 modMine - Data generated by the modENCODE project. • FBgn0028991 OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • FBgn0231072 FBgn0223389 FBgn0208602 FBgn0197067 FBgn0175190 FBgn0246253 FBgn0155277 FBgn0141137 FBgn0132412 FBgn0114692 FBgn0090002
Synonyms & Secondary IDs ( 15 )
Reported As
Symbol Synonym	2R5 (Andrews et al., 2009) 49Fc (Brenman et al., 2001) CG4037   CG4055 (Michaut et al., 2003, ) CG17724 (Berger et al., 2008) CG17724b   CG32904   l(2)49Fc (Hao et al., 1995, ) l(2)vr5 (Lasko and Pardue, 1988, ) seq (Parrish et al., 2007, Petrovic and Hummel, 2008, Andrews et al., 2009) Seq (Araújo and Casanova, 2011) vr5 (Renn et al., 1998, Wu and Howe, 1995)
Name Synonym	lethal(2)49Fc   sequoia (Gao et al., 1999, Parrish et al., 2006, Gao and Bogert, 2003, Petrovic and Hummel, 2008, Andrews et al., 2009, Berger et al., 2008, Wang et al., 2004) Sequoia (Araújo and Casanova, 2011)
Secondary FlyBase IDs
	FBgn0002074 FBgn0033803 FBgn0033804 FBgn0061357 FBgn0064120
References ( 40 )
Generate a list of	All references relating to this gene ( 40 )
List References by type	Research paper  ( 18 ) Supplementary material  ( 2 ) Review  ( 5 ) Personal communication to FlyBase  ( 4 ) FlyBase analysis  ( 4 ) Computer file  ( 1 ) Automatic genome annotation  ( 1 ) Curated genome annotation  ( 2 ) Book  ( 1 ) Conference report  ( 1 ) DNA/RNA sequence record  ( 1 )
Recent research papers ( 1 )
	Araújo and Casanova, 2011, J. Cell Sci. 124(14): 2335--2340 Sequoia establishes tip-cell number in Drosophila trachea by regulating FGF levels. [FBrf0214024] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2010 Show reviews ...