Status
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Gene information
General information
TC006775 Gene

The sequence from the iB fragment is matched against the genes from the official gene set. The matche(s) is/are visualizied in a genome browser.

NC_007423.3: 14023510..14025360
Sequence information
Transcripts / Proteins (1) Get mRNA sequence
Get CDS sequence
Get protein sequence
Ortholog information (from OrthoDB)

The information about the homolog genes in Drosophila is provided by OrthoDB http://www.orthodb.org/. The homologs are sorted according to their similarity score. For an orthology statement additional analysis are required.
The data basis for the orthologs is OrthoDB v9 containing OGS3 for Tribolium castaneum and 2015_04 (r6.07) for Drosophila melanogaster.

Closest fly homologs
    		TC006775
    Gene ontology

    GO terms for Tribolium

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    There are no GO terms for Tribolium at the moment. You can help the community by providing some GO terms for this gene.


    GO terms for the homologous Drosophila genes

    Assign a GO term to this Tribolium gene by filling in the fields. Repeat to add several GO terms. Search AmiGO for the correct GO ID. Use only the most specific term - use "graph views" to browse related terms ("child terms" are more specific; the more general "parent" terms will be automatically linked). Only information based on Tribolium data should be entered - do not define terms just based on Drosophila knowledge. We will review this information and submit the annotation to the Gene Ontology consortium.


    Gene
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    The Tribolium gene the GO term is assigned to.
    GO ID *
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    The ID of the GO term you assign to the gene. Please enter only the ID of the GO term with proceeding 'GO:'. This information is mandatory.
    Evidence
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    The evidence code describes with which method the function or location, expressed by the GO term, was show for this gene. Please refer to this page for a definition of the evidence code and a decision tree.
    Reference *
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    The reference where the function or location is described for the gene. Please enter a PubMed ID. This information is mandatory.
    Quotation
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    Name
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01091

    Attention! iBeetle is a first pass screen. Hence, the documented phenotypes need to be confirmed by independent experiments using non-overlapping dsRNA fragments! Phenotypes with a penetrance > 50% are frequently reproduced. See Schmitt-Engel et al. 2015 for details on reproducibility.

    iB sequence
    Phenotype after pupal injection
    Usually 10 injected animals

    Pupal injection procedure

    Day 0: 10 female pupae of the pBA19 strain (muscle enhancer trap line) were injected with dsRNA.

    3 days post injection (dpi): Hatch control: Pupal and adult lethality as well as metamorphosis defects (molting, eclosion) were documented. For mating, 4 males of the black strain were added.

    9 dpi: First egg-lay was collected and incubated for cuticle analysis. Adult lethality and egg production (reduced/ no egg-lay) was documented.

    11 dpi: Second egg-lay was collected and incubated for embryonic muscle analysis. Adult lethality and egg production (reduced/ no egg-lay) were documented.

    Note: The adult morphology was not analyzed systematically at 3/9/11 dpi. Only obvious phenotypes, visible without magnification, have been annotated.

    13 dpi: Egg productivity and Ovary analysis
    The percentage of hatched larvae was documented and not hatched larvae/ eggs were embedded for cuticle analysis (15 dpi). In case of a reduction of egg production, 4 injected females were dissected to analyze the gross morphology of the ovaries.

    14 dpi: Analysis of embryonic musculature and early embryonic development
    Offspring of the injected females (hatched and not hatched larvae/ eggs) were analysed for embryonic lethality and muscle defects.

    15 dpi: Analysis of larval instar 1 cuticle
    Offspring of injected females were analysed and cuticle phenotypes were annotated.

    22 dpi: Stink gland analysis
    Documentation of defects in abdominal and thoracic stink glands (colour, size, content) of the injected femals.

    Terms used in the pupal injection procedure

    larval pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    empty eggs
    Just empty shells are visible, no cuticle has been developed.
    strong defects
    L1 cuticle larvae which show severe defects. These strong defects are subdivided into three categories
    strongly fragmented (cuticle crumbs)
    No segments or appendages are identifiable, only residues of cuticle and bristles can be identified.
    cuticle remnants (with unidentifiable segments)
    Segments or parts of appendages are recognizable, but identity is not clear.
    cuticle remnants (with some identifiable segments)
    At least one segment or appendage is clearly regonizable.
    number of eggs on slide
    affected embryos usually (not always) do not hatch. Only the not hatched were used for cuticle analysis.
    For the embryonic muscle analysis the hatched as well as the not hatched were analysed.
    total number of affected eggs/embryos/larvae
    Summary of all different phenotypes/ phenotypic series which were annotated.
    inside-out
    The L1 larva shows a partial or complete inversion., e.g. bristles, appendages or parts of the abdominal segments are inverted into the interior of the cuticle.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    Please see the help page for more information
    Metamorphosis and survival

    Lethality 11 days after pupal injection: 90.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    Phenotype after larval injection
    Usually 10 injected animals

    Larval injection procedure

    Day 0: 10 female L5-6 larvae of the D17Xhom strain (females express RFP in the eyes and in the CNS; pupae express GFP in the thorax) were injected with dsRNA.

    11 days post injection (dpi): Pupal morphology Documentation of larval/ pupal death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of pupal head and appendages, pupal thorax, pupal thoracic musculature, pupal legs, pupal wings, pupal abdomen and pupal genital lobes.

    16 dpi: Adult morphology Documentation of larval/ pupal and adult death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of adult head and appendages, adult thorax, adult elytra and hindwings, adult legs and cuticle properties. For mating 4 males of the black strain were added.

    19 dpi: Sieving and egg-lay Documentation of adult lethality and enduring metamorphosis defects.

    22 dpi: Ovary analysis (Fertility) In case of a reduction of egg production 4 females were dissected and the gross morphology of the ovaries were analysed.

    41 dpi: Fertility and stink gland analysis Documentation of defects in abdominal and thoracic stink glands development (colour, size, content) of the injected females. Check for fertility of injected larvae (no or decreased offspring).

    Terms used in the larval injection procedure

    pupal/ adult pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    pupal molt not fulfilled
    The hatching from the larva to the pupa is interrupted. Either it dies as prepupa or the phenotype shows larval as well as pupal features.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    Metamorphosis and survival

    Lethalities 11 days after larval injection: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection

    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 4 (16 dpi)
    Days post injection


    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 5 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006775 RA
      MGDKGDSET FDDAVEERV INEEYKIWK KNTPFLYDL 
VMTHALEWP SLTAQWLPD VTRPEGKDH SIHRLILGT 
HTSDEQNHL LIASVQLPN EDAQFDASH YDNEKGEFG 
GFGSVSGKI EIEIKINHE GEVNRARYM PQNPCVIAT 
KTPSSDVLV FDYTKHPSK PDPNGECHP DLRLRGHQK 
EGYGLSWNP NLNGYLLSA SDDHTICLW DINATPKEN 
RIIDAKTIF TGHTAVVED VAWHLLHES LFGSVADDQ 
KLMIWDTRC NNTSKPSHT VDAHTAEVN CLSFNPYSE 
FILATGSAD KTVALWDLR NLKLKLHSF ESHKDEIFQ 
VQWSPHNET ILASSGTDR RLHVWDLSK IGEEQSPED 
AEDGPPELL FIHGGHTAK ISDFSWNPN EPWVICSVS 
EDNIMQVWQ MAENIYNDE EPEQQADME TPAN
    CDS sequence
    • >TC006775 RA
      atgggggat aagggagac tccgaaacc ttcgacgac 
gcggtcgag gagcgagtc atcaacgaa gagtacaag 
atctggaaa aaaaacacc ccttttttg tacgacctt 
gtaatgaca catgccctc gagtggccc tctttaacc 
gcccagtgg ctgcccgat gtaacgcgc cccgagggc 
aaagaccac tccatccac cgcctaatc ctcggcact 
cacacctcc gacgagcaa aaccacctc ctgatcgcc 
agcgtccag ctcccgaac gaagacgct cagttcgat 
gcctcgcac tatgataac gaaaagggc gagtttggc 
ggttttggc tcagtttcg gggaaaatt gagattgaa 
attaaaatc aaccacgaa ggagaggtg aacagggct 
cgctacatg ccccagaac ccgtgcgtt atagccaca 
aaaaccccc tcaagcgac gtgctagtg ttcgactat 
acgaagcac cccagcaag cctgacccc aacggggag 
tgccacccg gacctgaga ctccggggg caccagaag 
gagggctac gggctgtcc tggaacccc aacttgaac 
ggctatttg ctctcggcc agcgatgac cacacgatc 
tgtctctgg gacattaac gcgaccccg aaagagaac 
cgaattata gacgcgaag accattttt acggggcac 
actgccgtg gtggaggac gtcgcctgg caccttctg 
cacgaaagt ctcttcggt tcggtcgca gacgaccag 
aaattgatg atttgggac actaggtgt aacaatacg 
agcaaaccg tcgcacact gtcgatgca cacactgct 
gaggttaac tgtctcagt ttcaacccc tattcggag 
tttattctt gcaactggg agcgctgat aagactgta 
gctttgtgg gatttgagg aatcttaag ttgaaattg 
cacagtttt gagtcgcac aaggatgag attttccaa 
gtgcagtgg agcccccat aatgagact attctggcg 
tcgtcgggg accgatcgc aggctgcat gtctgggat 
ttgagcaaa atcggagag gagcaaagt ccggaggat 
gcagaggat gggcctccg gagctcctc ttcatacat 
gggggccac acggccaaa atttcagat tttagttgg 
aatcccaac gaaccgtgg gttatttgt tccgtgtct 
gaggataat attatgcaa gtgtggcaa atggccgag 
aatatttat aacgatgag gagcccgag caacaggcc 
gatatggaa actccagcg aattag
    mRNA sequence
    • >TC006775 RA
      ccaccgcca aaattttgg ccacggttt gcttaattt 
gaatctgct gacttgtgg cgttgtggc accactgtt 
ccaaattgg cgggctagc gtcatattt agtggacgg 
ctcattcat ttttacttg aatttatca attttaaca 
ttattcgtt tgtgttcgt tgtaacaat gggggataa 
gggagactc cgaaacctt cgacgacgc ggtcgagga 
gcgagtcat caacgaaga gtacaagat ctggaaaaa 
aaacacccc ttttttgta cgaccttgt aatgacaca 
tgccctcga gtggccctc tttaaccgc ccagtggct 
gcccgatgt aacgcgccc cgagggcaa agaccactc 
catccaccg cctaatcct cggcactca cacctccga 
cgagcaaaa ccacctcct gatcgccag cgtccagct 
cccgaacga agacgctca gttcgatgc ctcgcacta 
tgataacga aaagggcga gtttggcgg ttttggctc 
agtttcggg gaaaattga gattgaaat taaaatcaa 
ccacgaagg agaggtgaa cagggctcg ctacatgcc 
ccagaaccc gtgcgttat agccacaaa aaccccctc 
aagcgacgt gctagtgtt cgactatac gaagcaccc 
cagcaagcc tgaccccaa cggggagtg ccacccgga 
cctgagact ccgggggca ccagaagga gggctacgg 
gctgtcctg gaaccccaa cttgaacgg ctatttgct 
ctcggccag cgatgacca cacgatctg tctctggga 
cattaacgc gaccccgaa agagaaccg aattataga 
cgcgaagac catttttac ggggcacac tgccgtggt 
ggaggacgt cgcctggca ccttctgca cgaaagtct 
cttcggttc ggtcgcaga cgaccagaa attgatgat 
ttgggacac taggtgtaa caatacgag caaaccgtc 
gcacactgt cgatgcaca cactgctga ggttaactg 
tctcagttt caaccccta ttcggagtt tattcttgc 
aactgggag cgctgataa gactgtagc tttgtggga 
tttgaggaa tcttaagtt gaaattgca cagttttga 
gtcgcacaa ggatgagat tttccaagt gcagtggag 
cccccataa tgagactat tctggcgtc gtcggggac 
cgatcgcag gctgcatgt ctgggattt gagcaaaat 
cggagagga gcaaagtcc ggaggatgc agaggatgg 
gcctccgga gctcctctt catacatgg gggccacac 
ggccaaaat ttcagattt tagttggaa tcccaacga 
accgtgggt tatttgttc cgtgtctga ggataatat 
tatgcaagt gtggcaaat ggccgagaa tatttataa 
cgatgagga gcccgagca acaggccga tatggaaac 
tccagcgaa ttagtctag tttttttat ttatgttta 
gttttagtg ttacctgta agcatacca cgttctcgt 
ttcctttac tgaagtaat taagtgaaa gtgtgacca 
tttgtgttt atcaaactg aaacattat gttatccac 
aatatttta aacattttt tacaaataa ataaatact 
ttgtccaga a

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY