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Gene information
General information
TC006794 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: 14343024..14344342
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
    TC006794
    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
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    Name
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    Email
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    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09423

    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: 40.0% (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: 1 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature mostly not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature thinner - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006794 RA
      MATLTRQLA NSIKVQLNL NFFRPNSTA TKLVYAEHG 
      DPIKVVHTA NEPIPKPKD DEVVIKMLA APVNPADIN 
      TIQGKYPSR PPLPAVPGN EGVGEVVSV GQGVNDLKE 
      GDRVVPLVN ALGTWRTHT VVSKNNVLK VPKKLGLVE 
      AATLTVNPC TAFRMLRDF VDLKPGDTV IQNGANSAC 
      GQNVIQICR AWGLRSVNI VRDRAGIDE LRCFLQNLG 
      ANHVLTEEE LRKTEIFKS GKLEKPKLA LNCVGGQNA 
      LEVMRHLDK GGTMVTYGG MSREPVTVP TSALIFKDL 
      RIRGFWMTD WTKQNADSV DRFEMFEEL ISMMTTNEL 
      QGPAFKMVS FEQYKEALM NTMTIKGMI GKKYILEFK
    CDS sequence
    • >TC006794 RA
      atggccacc ctgacccgc cagttggcc aattcaatc 
      aaagtgcaa cttaacctc aacttcttt cggcccaac 
      agtaccgct accaagcta gtctatgcc gaacatggg 
      gaccccatc aaagtcgtc cacacagca aacgaacct 
      attcctaag cccaaagac gacgaagtc gtcattaaa 
      atgcttgca gcccccgtg aaccccgct gacataaac 
      acaatccaa gggaagtat ccctcacgg ccgccttta 
      cctgcagtt cccgggaac gaaggtgtc ggggaagtt 
      gtcagtgtg gggcaaggt gtgaacgat ctcaaggag 
      ggcgatcgt gtggtgccc cttgtcaac gctttgggg 
      acctggagg acacacacc gttgtctcc aaaaacaac 
      gttttgaaa gttccgaaa aaattgggg cttgtggag 
      gctgccacc cttacagtt aacccctgt acggccttt 
      cgaatgctg cgtgatttc gtcgatttg aagcctgga 
      gacactgtt atccaaaat ggggccaat tctgcatgt 
      ggacaaaac gtgattcag atttgccgc gcctggggg 
      ctcaggagc gtgaatatt gtgcgagac agggccggc 
      attgacgaa ttgcgctgt ttcctccag aatctgggg 
      gctaaccat gtcctcact gaagaggag ttgagaaaa 
      accgagatt tttaaaagc ggaaagctt gaaaaaccg 
      aagttggcc ttgaattgt gtcgggggg cagaatgcc 
      ttggaggtc atgcggcat ttggacaaa gggggcacc 
      atggtgacg tatggaggg atgtcgagg gagccggtg 
      acagtcccc acttcggcg cttattttc aaagatttg 
      agaataagg gggttctgg atgaccgat tggacgaag 
      caaaatgcc gatagtgtt gatcgattt gaaatgttt 
      gaagagttg atttcgatg atgacgacc aatgagctg 
      caaggaccc gcgtttaaa atggtcagt tttgagcag 
      tacaaggag gccttgatg aacaccatg accatcaag 
      gggatgatc ggcaaaaaa tacatctta gagtttaaa 
      taa
    mRNA sequence
    • >TC006794 RA
      ctttcaaaa aaatcgggc aaattggca aaaacacct 
      ttcgaaccg cgtcggtaa agcagcgag attccttaa 
      cgtcaattt tgattagga atgttttta ttaataact 
      ggtacaaag tttaacttt ttgtgattt tttcgtcaa 
      attcgttcg tctacgtgg aaataatgg ccaccctga 
      cccgccagt tggccaatt caatcaaag tgcaactta 
      acctcaact tctttcggc ccaacagta ccgctacca 
      agctagtct atgccgaac atggggacc ccatcaaag 
      tcgtccaca cagcaaacg aacctattc ctaagccca 
      aagacgacg aagtcgtca ttaaaatgc ttgcagccc 
      ccgtgaacc ccgctgaca taaacacaa tccaaggga 
      agtatccct cacggccgc ctttacctg cagttcccg 
      ggaacgaag gtgtcgggg aagttgtca gtgtggggc 
      aaggtgtga acgatctca aggagggcg atcgtgtgg 
      tgccccttg tcaacgctt tggggacct ggaggacac 
      acaccgttg tctccaaaa acaacgttt tgaaagttc 
      cgaaaaaat tggggcttg tggaggctg ccaccctta 
      cagttaacc cctgtacgg cctttcgaa tgctgcgtg 
      atttcgtcg atttgaagc ctggagaca ctgttatcc 
      aaaatgggg ccaattctg catgtggac aaaacgtga 
      ttcagattt gccgcgcct gggggctca ggagcgtga 
      atattgtgc gagacaggg ccggcattg acgaattgc 
      gctgtttcc tccagaatc tgggggcta accatgtcc 
      tcactgaag aggagttga gaaaaaccg agattttta 
      aaagcggaa agcttgaaa aaccgaagt tggccttga 
      attgtgtcg gggggcaga atgccttgg aggtcatgc 
      ggcatttgg acaaagggg gcaccatgg tgacgtatg 
      gagggatgt cgagggagc cggtgacag tccccactt 
      cggcgctta ttttcaaag atttgagaa taagggggt 
      tctggatga ccgattgga cgaagcaaa atgccgata 
      gtgttgatc gatttgaaa tgtttgaag agttgattt 
      cgatgatga cgaccaatg agctgcaag gacccgcgt 
      ttaaaatgg tcagttttg agcagtaca aggaggcct 
      tgatgaaca ccatgacca tcaagggga tgatcggca 
      aaaaataca tcttagagt ttaaataaa ttgttctgt 
      gtttgttgt tgttagatt aataaggat ttcaaagaa 
      ccaaataaa gatatgttt atgag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY