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Gene information
General information
TC014065 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_007420.3: 5180898..5182685
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
    TC014065
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05549

    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: 20.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: - Number of animals showing the phenotype: 2
    vitellogenic egg chamber late number decreased - Number of animals showing the phenotype: 2

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants without visible segmentation but ap-polarity - Penetrance (percentage of animals/eggs on slide): more than 80%

    larva shape irregular - Penetrance (percentage of animals/eggs on slide): more than 80%
    larva appendages mostly not present - Penetrance (percentage of animals/eggs on slide): more than 80%
    larva potentially ventralnot present - Penetrance (percentage of animals/eggs on slide): more than 80%
    larva partially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014065 RA
      MLTMETDLK GGSLHATMP PHHAIQSYG SLAPMHMGQ 
      HPHQMHHQP QPPQPPPQL HHHQPPSTQ HQTQNNNNN 
      NTKSQNMER VKRPMNAFM VWSRGQRRK MAQENPKMH 
      NSEISKRLG AEWKLLSEA EKRPFIDEA KRLRAVHMK 
      EHPDYKYRP RRKTKTLLK KDKYPLGAS SLIPTSDPT 
      RTAPSAVQQ VSSRDMYQM PNGYMPNGY MMHDPGAYQ 
      QQYTGSNYG RYDMSQMQY MNGYGYGAT VPQSAGSPY 
      GMQQTSSHS PSGSSIKSE PVSPSSGLH TPTPGVKRE 
      YGQQQQPQG DLRQMISMY LPTDGSQHM QQYSASPDP 
      LGPGPLAPL AHM
    CDS sequence
    • >TC014065 RA
      atgttgacg atggaaacg gacctcaaa gggggcagt 
      ttgcacgcg acgatgccg ccgcaccac gccatacag 
      tcctacggc tcgctggcc cccatgcac atgggccaa 
      cacccccat cagatgcac caccagccc cagccgccc 
      caaccaccg ccgcaactg caccaccac caaccacca 
      tccacccag caccagacc cagaacaac aacaacaac 
      aataccaaa tcgcaaaac atggagcgg gtcaaacgg 
      cccatgaac gccttcatg gtgtggtcg cggggccag 
      cggcggaaa atggcccag gaaaacccc aaaatgcac 
      aattcggaa atctcgaag cggctgggg gccgagtgg 
      aagctgttg agtgaggcc gagaagcgg cccttcatc 
      gacgaggcc aagcggctg agggccgtg cacatgaag 
      gaacacccg gattacaag taccggcct aggaggaag 
      accaagacg ctcctgaag aaggataaa tatcccttg 
      ggagcgtcc agcttgatc ccgactagt gacccgacg 
      cggacggcg ccttcggcg gtccaacag gtgtccagc 
      cgggacatg taccagatg cccaatggg tacatgccc 
      aacgggtac atgatgcac gaccccggg gcctaccag 
      cagcagtac accgggtcc aactacggc cgctacgac 
      atgtcgcaa atgcagtac atgaacggt tacggttac 
      ggggccacc gtgccccag agtgcaggc tccccctac 
      ggaatgcaa cagacgtcg tcgcatagc ccctctggg 
      tccagtata aaatcggag ccggtttct ccgagttcg 
      gggctgcac acaccgacg ccgggcgtc aagcgggag 
      tacggccaa cagcagcag ccccagggg gacctgcga 
      cagatgatc tccatgtac ctgcccacc gatgggtcc 
      cagcacatg cagcagtac agtgcgtcg ccggacccg 
      ctggggccc gggcccctg gcgcccctc gcgcacatg 
      tga
    mRNA sequence
    • >TC014065 RA
      gtagagaaa ctccgagta gcgtggagg tgaccgtgt 
      ttgtgttgt agtgtgcag tgaaaacca gcaaactgt 
      tcgcgccga cggaagaca tgttgacga tggaaacgg 
      acctcaaag ggggcagtt tgcacgcga cgatgccgc 
      cgcaccacg ccatacagt cctacggct cgctggccc 
      ccatgcaca tgggccaac acccccatc agatgcacc 
      accagcccc agccgcccc aaccaccgc cgcaactgc 
      accaccacc aaccaccat ccacccagc accagaccc 
      agaacaaca acaacaaca ataccaaat cgcaaaaca 
      tggagcggg tcaaacggc ccatgaacg ccttcatgg 
      tgtggtcgc ggggccagc ggcggaaaa tggcccagg 
      aaaacccca aaatgcaca attcggaaa tctcgaagc 
      ggctggggg ccgagtgga agctgttga gtgaggccg 
      agaagcggc ccttcatcg acgaggcca agcggctga 
      gggccgtgc acatgaagg aacacccgg attacaagt 
      accggccta ggaggaaga ccaagacgc tcctgaaga 
      aggataaat atcccttgg gagcgtcca gcttgatcc 
      cgactagtg acccgacgc ggacggcgc cttcggcgg 
      tccaacagg tgtccagcc gggacatgt accagatgc 
      ccaatgggt acatgccca acgggtaca tgatgcacg 
      accccgggg cctaccagc agcagtaca ccgggtcca 
      actacggcc gctacgaca tgtcgcaaa tgcagtaca 
      tgaacggtt acggttacg gggccaccg tgccccaga 
      gtgcaggct ccccctacg gaatgcaac agacgtcgt 
      cgcatagcc cctctgggt ccagtataa aatcggagc 
      cggtttctc cgagttcgg ggctgcaca caccgacgc 
      cgggcgtca agcgggagt acggccaac agcagcagc 
      cccaggggg acctgcgac agatgatct ccatgtacc 
      tgcccaccg atgggtccc agcacatgc agcagtaca 
      gtgcgtcgc cggacccgc tggggcccg ggcccctgg 
      cgcccctcg cgcacatgt gagagccgc tgttcgaac 
      ttgacggtg actgagtgt aaatagttg cgaattttg 
      gttccttaa ccatctaca gtattgtta tatttgtaa 
      ggatgcggc cgttcattt tgctgtaag tggtccagt 
      acaaacttt tcctatctc gaatctcac gctcacgca 
      aaatgaatc cgtcgccat ttatttagt tcacactgt 
      attccgtgt atatagtca ttcaaacgc gttttgtat 
      agaacatca cgaaggttc actaccaaa aattttgta 
      aatagggcc cagcaggac cgagacgtc gacggttac 
      agcggacgc gtctcagtt aggtttttg acaaacgat 
      cccagtgtc tcttccgca tctcatatg tagtgtaaa 
      tatttataa atctcttag atttttgcc acttggacg 
      aagagagca ctaccggtt tgttcttgt tggttattc 
      tcttattat tttttataa ttgtttgtt cattcttcc 
      ggcgcgcgg aacatttgt tacttttcg aagaaagaa 
      atcaaatta tttttttta ttgtgatgt cggcctgag 
      aaagaaatg aacatttca aatttatca tcacagctt 
      tgtacatat taattttaa gttcatttt ttgaatgta 
      cagtgtgtt tacaattat tagtcaatg gaacgaaaa 
      tgtgaatat atgagattg acaagt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY