A Database of Drosophila Genes & Genomes

FB2008_06, released July 3, 2008
 

Gene Dmel\stc

General Information
SymbolDmel\stcSpeciesD. melanogaster
Nameshuttle craftAnnotation symbolCG3647
Feature typeprotein_coding_geneFlyBase IDFBgn0001978
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)2LRecombination map
Cytogenetic map 35C2-35C2 Sequence location2L:15,113,482..15,118,070 [+]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
The gene shuttle craft is referred to in FlyBase by the symbol stc (CG3647, FBgn0001978). It has the cytological map location 35C2. Its sequence location is 2L:15113482..15118070. Its molecular function is described as: RNA polymerase II transcription factor activity; single-stranded DNA binding; electron carrier activity; protein binding; zinc ion binding; transcription factor activity. It is involved in the biological processes: regulation of transcription; nervous system development; regulation of transcription, DNA-dependent. 12 alleles are reported. The phenotypes of these alleles are annotated with: embryonic/first instar larval cuticle; denticle belt; ventral nerve cord; embryonic central nervous system; anterior fascicle; abdominal posterior fascicle; central nervous system. It has 2 annotated transcripts and 2 annotated polypeptides.

External Summaries

hide Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage
l(2)35Cb
l(2)35Cb1 escapes in heterozygous combination with Df(2L)Sco4, but not with other l(2)35Cb deficiencies.
hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
35C2-35C2  
Limits computationally determined from genome sequence between P{EP}vigEP812&P{PZ}stc05441 and P{EP}esgEP633&P{PZ}esg07082  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
34C4-36A7
 
(Oh et al., 2003)
35C1-35C2
(determined by in situ hybridisation)  
(Ashburner et al., 1999)
35C1-35C2
(determined by in situ hybridisation)  
(Spradling et al., 1999)
35C-35C
(determined by in situ hybridisation)  
(Stroumbakis et al., 1996)
35C1-35C2
 
(BDGP Project Members, 1994-1999)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology)
References
In direction of increasing cytology: CG15269+ stc+ tRNA:L:35C-
(Ashburner et al., 1999)
Gene Order (overall orientation not stated)
References
hide Gene Model & Products
Please see the GBrowse view of Dmel\stc for information on other features
detailed view FBtr0080704 FBtr0080706 FBtr0080705 FBpp0080264 FBpp0080265 FBpp0080266 FBti0005150 FBti0021460 FBti0035170
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
stc-RA
FBtr0080706
 NM_057250
  4123
  1099
stc-RB
FBtr0080705
 NM_057251
  4144
  1106
Additional Transcript Data & Comments
Reported size (kB)
4.0 (northern blot)
(Stroumbakis et al., 1996)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
stc-PA  
FBpp0080266  
122.4  
1099  
8.34  
  NP_476598
  AAN10891
stc-PB  
FBpp0080265  
123.2  
1106  
8.34  
  NP_476599
  AAF53441
Additional Polypeptide Data & Comments
Reported size (kD)
1106, 1099 (aa); 123 (kD predicted)
(Stroumbakis et al., 1996)
Comments
External Data
Linkouts
PANTHER - Protein classification by function, families, and pathways
•
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Zinc finger, NF-X1-type (IPR000967)
Single-stranded nucleic acid binding R3H (IPR001374)
Zinc finger, RING-type (IPR001841)
Zinc finger, PHD-type (IPR001965)
2Fe-2S ferredoxin, iron-sulphur binding site (IPR006058)
TRANSFAC - Eukaryotic transcription factors, their genomic binding sites, and DNA-binding profiles
•
  • T01688
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA202170
 
AA390475
 
AA390501
 
AA391078
 
AA820112
 
AA941360
 
AA941373
 
AA948858
 
AA952254
 
AA978739
 
AB082587
 
AE003412
AAF44922
 
AE003646
AAF53441
 
AE003646
AAN10891
 
AF145679
AAD38654
 
AI455296
 
BF486760
 
BF489320
 
BF491441
 
BF497142
 
BF497530
 
BF498285
 
BF506177
 
BF506288
 
BF506626
 
BG635063
 
BI165083
 
BI171004
 
BI214340
 
BI214520
 
BI216567
 
BI216705
 
BI230509
 
BI230571
 
BI231925
 
BI235375
 
BI236500
 
BI237045
 
BI238284
 
BI241981
 
BI361947
 
BI371766
 
BI632546
 
BI633844
 
BI639349
 
BP544150
 
BP544151
 
CO288504
 
CO311017
 
CO312388
 
CO313213
 
CO335352
 
EC070162
 
EC074912
 
EC202254
 
EC204804
 
EC207789
 
EC236679
 
EC263134
 
EL873018
 
G00414
 
U09306
AAB60255
 
 
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL
    Maps to
    (FlyBase, 1992-, Ashburner et al., 1999.10.12)
    Does NOT map to
    Identified with
    (Ashburner et al., 1999.10.12)
    (Ashburner et al., 1999, Ashburner et al., 1999.10.12)
    (Ashburner et al., 1999.10.12, BDGP Project Members, 2000-)
    (BDGP Project Members, 1994-1999, Spradling et al., 1999, Ashburner et al., 1999)
    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
    hide External Data
    Linkouts
    DEDB - Drosophila exon database: splicing graphs
    •
    Crossreferences
    hide Expression Data
    FlyBase-Curated Data
    Transcript and
    Protein data     		Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
    hide Summary of Transcript Expression
    Stage
    Tissue/Position
    Reference
     oogenesis stage,adult stage | female
     ovary
    (Stroumbakis et al., 1996)
     embryonic stage-adult stage
     
    (Stroumbakis et al., 1996)
    Marker for
      Subcellular Localization
      CV Term
      hide Summary of Polypeptide Expression
      Stage
      Tissue/Position
      Reference
       embryonic stage | stage 13-17
       embryonic central nervous system | restricted
      (Stroumbakis et al., 1996)
       embryonic stage | stage 13-17
       larval brain | restricted
      (Stroumbakis et al., 1996)
      Marker for
        Subcellular Localization
        CV Term
        nuclear
        (Stroumbakis et al., 1996)
        hide External Data & Images
        Linkouts
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        FlyExpress - Embryonic expression images (BDGP data)
        •
        Show all FlyExpress processed images for stc
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Lethality
        Allele
        lethal | recessive
        lethal | embryonic stage | maternal effect | recessive
        lethal | embryonic stage | recessive
        Phenotype manifest in
        Allele
        embryonic/first instar larval cuticle | maternal effect
        denticle belt | maternal effect
        anterior fascicle & embryo | maternal effect
        abdominal posterior fascicle & embryo | maternal effect
        ventral nerve cord | maternal effect
        ventral nerve cord & abdominal segment 4 | maternal effect
        ventral nerve cord & abdominal segment 5 | maternal effect
        ventral nerve cord & abdominal segment 6 | maternal effect
        ventral nerve cord & abdominal segment 7 | maternal effect
        ventral nerve cord & abdominal segment 8 | maternal effect
        embryonic central nervous system | maternal effect
        anterior fascicle
        abdominal posterior fascicle
        central nervous system
        hide Classical Alleles ( 11 )
        For All Classical Alleles Show

        Allele of stcClassMutagenStocksKnown lesion
        stc05441loss of function1 Yes
        stc10 --
        stc20 --
        stc3loss of function0 --
        stc40 --
        stc50 --
        stc60 --
        stcSH15650 --
        stcTE35D-4
          		0 --
          stck111120 --
          stcunspecified
            		0 --
            hide Alleles Carried on Transgenic Constructs ( 1 )
            For All Alleles Carried on Transgenic Constructs Show

            Allele of stcClassMutagenStocksKnown lesion
            stcGD15432 Yes
            hide Aneuploid Aberrations
            Useful deficiency
             
            Useful duplication
             
             
            Disrupted in
            (Ashburner et al., 1982, Fossett et al., 1994)
            (Ashburner et al., 1982, Fossett et al., 1994, Roote et al., 1996)
            (Ashburner et al., 1982, Fossett et al., 1994)
            (Ashburner et al., 1982, Furukawa et al., 1992)
            (Ashburner et al., 1982, Fossett et al., 1994)
            (Fossett et al., 1994)
            (Ashburner et al., 1982, Ashburner, 1982, Fossett et al., 1994)
            (Ashburner et al., 1982, Ashburner, 1982)
            (Ashburner et al., 1982, Ashburner, 1982, Fossett et al., 1994, Roote et al., 1996)
            (Spradling et al., 1999, Cai et al., 2001, Ashburner et al., 1982, Ashburner et al., 1982, Grau et al., 1984, Fossett et al., 1994)
            (Ashburner et al., 1982, Ashburner et al., 1982, Ashburner et al., 1990, Fossett et al., 1994, Roote et al., 1996)
            (Fossett et al., 1994)
            (Fossett et al., 1994)
            (Fossett et al., 1994)
            (Fossett et al., 1994, Roote, 1996.1.11, Roote et al., 1996, Roote, 1996.8)
            (Fossett et al., 1994)
            (Fossett et al., 1994)
            (Fossett et al., 1994, Roote, 1996.1.11, Roote et al., 1996, Roote, 1996.8)
            (Fossett et al., 1994)
            (Fossett et al., 1994)
            (Fossett et al., 1994, Roote, 1996.1.11, Roote et al., 1996, Roote, 1996.8)
            (Fossett et al., 1994)
            (Fossett et al., 1994)
            (Fossett et al., 1994, Roote, 1996.1.11, Roote, 1996.8)
            (Roote, 1995.3.24)
            (Roote, 2004.6.24)
            (Ryder, 2004.4.26)
            (Ashburner et al., 1983, Ashburner et al., 1990)
            (Ashburner, 1982, Ashburner et al., 1983, Grau et al., 1984)
            (Ashburner et al., 1983, Ashburner et al., 1990, Roote et al., 1996)
            (Gubb et al., 1985)
            (Gubb et al., 1985)
            (Gubb et al., 1985, Roote, 1996.8)
            (Gubb et al., 1985, Roote et al., 1996)
            (Gubb et al., 1984, Zhu et al., 2005)
            (Cai et al., 2001, Ashburner et al., 1982, Ashburner, 1982, Gubb et al., 1984, Ashburner et al., 1990, Grau et al., 1984)
            (Gubb et al., 1984, Ashburner et al., 1990)
            (Gubb et al., 1984)
            (Ashburner et al., 1982, Ashburner, 1982, Gubb et al., 1984, Ashburner et al., 1990)
            (Gubb et al., 1984)
            (Gubb et al., 1984)
            (Ashburner et al., 1990)
            (Furukawa et al., 1992)
            (Ashburner et al., 1990)
            (Ashburner et al., 1990)
            (Ashburner et al., 1990, Stroumbakis et al., 1996, Roote, 1997.6.6)
            (Ashburner et al., 1990)
            (Furukawa et al., 1992, Roote, 1996.8)
            (Alexandrov and Alexandrova, 1991, Roote, 1996.8)
            (Ashburner, 1982)
            (Ashburner et al., 1990)
            (Ashburner et al., 1990, Furukawa et al., 1992)
            (Ashburner et al., 1983)
            (Ashburner et al., 1982, Ashburner et al., 1982, Grau et al., 1984)
            (Ashburner et al., 1982, Ashburner et al., 1990)
            (Ashburner et al., 1982, Ashburner et al., 1982, Ashburner, 1982, Ashburner et al., 1990)
            (Ashburner et al., 1982, Furukawa et al., 1992)
            (Roote, 2000.6.13)
            (Roote, 2000.6.13)
            (Ashburner et al., 1982, Ashburner et al., 1990)
            (Roote et al., 1996, Roote, 1996.8)
            (Roote et al., 1996)
            (Ashburner et al., 1990)
            (Cai et al., 2001, Ashburner et al., 1982, Furukawa et al., 1992, Grau et al., 1984)
            (Ashburner et al., 1990)
            (Ashburner, 1982, Grau et al., 1984)
            (Ashburner et al., 1983, Ashburner and Harrington, 1984)
            (Ashburner et al., 1983, Ashburner and Harrington, 1984)
            (Gubb et al., 1985)
            (Ashburner et al., 1990)
            (Ashburner et al., 1990)
            (Ashburner and Harrington, 1984)
            (Cai et al., 2001, Ashburner and Harrington, 1984)
            (Roote, 1997.6.6)
            (Ashburner et al., 1982, Ashburner et al., 1982, Fossett et al., 1994)
            (Ashburner and Harrington, 1984)
            (Ashburner et al., 1983, Ashburner and Harrington, 1984)
            Partially disrupted in
            (Ashburner et al., 1999.10.12)
            Not disrupted in
            (Ashburner, 1982, Ashburner et al., 1990, Furukawa et al., 1992)
            (Ashburner et al., 1982, Ashburner et al., 1982, Fossett et al., 1994)
            (Ashburner et al., 1982, Fossett et al., 1994)
            (Ashburner et al., 1982, Fossett et al., 1994)
            (Ashburner et al., 1982)
            (Ashburner et al., 1982, Ashburner et al., 1982, Fossett et al., 1994)
            (Ashburner et al., 1982, Ashburner et al., 1982, Lasko and Ashburner, 1988, Ashburner et al., 1990, Fossett et al., 1994)
            (Ashburner et al., 1982, Ashburner et al., 1982, Fossett et al., 1994)
            (Ashburner et al., 1982)
            (Ashburner et al., 1982, Fossett et al., 1994)
            (Ashburner et al., 1982, Fossett et al., 1994)
            (Ashburner et al., 1982, Ashburner et al., 1982, Fossett et al., 1994)
            (Ashburner, 1982, Ashburner et al., 1990, Furukawa et al., 1992)
            (Fossett et al., 1994)
            (Fossett et al., 1994)
            (Fossett et al., 1994)
            (Fossett et al., 1994)
            (Fossett et al., 1994)
            </