Status
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Gene information
General information
TC003029 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_007418.3: 3950992..3952541
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
    TC003029
    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
    {{ goGene }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    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_00505

    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: 30.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 70.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 4 (19 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003029 RA
      MTSDKIENL DNLIAEIIP KNYAFVDAK ITRLTASGD 
      NYGSLLLAV DITVKNEKE NKLIHAVAK RPPSNKLVQ 
      ELFNSQFTF PNEVGFYQT IIPCLRQFQ QEQGVKDLI 
      SCFPEFYTA RLSKDATGK VDESSVLLI KNIKKEGFQ 
      TLDRTVGFN LEQGRFILG KMAEMHATS LALKILRPE 
      EFKSKLGPF LQQYKVFEM AEEDNRKMI NVSLNVVKE 
      DDVCRKYLP QIEEFLWKN LDFCLTKNI KTSSPSHFL 
      TLTHCDLWV NNIMVKFDK NSRITEVKF VDFQLYEYA 
      SFVRDVVFF IFSSVQTSV LKESCDDLL LHYFDSLIK 
      HLVSLKCDT KLFTYDAFL DEIKSVVHQ GEFFHVLTM 
      LPPIFAAEK DTKEVEALE LHDVIFHES EVTETHREK 
      AYFVVKEFI RRGWLFQGD S
    CDS sequence
    • >TC003029 RA
      atgacatct gataaaata gaaaacttg gacaatctc 
      atcgccgag atcattccc aagaattat gcttttgtt 
      gatgcgaaa ataacacga ctaacagct tctggtgac 
      aattatggc agtctttta ctggctgtg gacatcact 
      gtgaagaat gaaaaagaa aacaaacta atccacgcc 
      gtagctaag aggccgccg tcaaacaaa ctcgtgcaa 
      gagcttttt aatagtcag ttcactttt cctaacgaa 
      gtcggtttt taccagacc attattccg tgtttgagg 
      cagttccag caagaacaa ggtgtcaag gatttgatt 
      agttgtttc cctgagttt tacacggcc aggttgagt 
      aaagacgcg actggaaaa gttgacgaa agctctgta 
      ttgttaatc aaaaatatc aaaaaagag ggtttccaa 
      actttggac agaacagtg gggtttaac cttgaacag 
      gggcggttt attttgggg aaaatggca gagatgcac 
      gccacaagt cttgcactg aaaattctg agacctgaa 
      gaatttaaa tcgaaactg gggccgttt ttacaacag 
      tacaaagtg tttgagatg gccgaagag gacaatcga 
      aaaatgata aacgtgtca ttaaatgtg gtgaaagag 
      gatgacgtc tgtcggaaa tatctaccc cagattgaa 
      gagtttctc tggaagaat ctcgatttc tgtctcacg 
      aaaaatatc aaaacaagt tcgccgagt cattttctg 
      accttgacc cattgcgat ctgtgggtg aacaatatt 
      atggtcaaa tttgataag aatagccga atcactgaa 
      gtgaaattt gtcgatttt cagttgtat gaatacgct 
      tcgtttgtg agggacgtt gttttcttt attttcagc 
      agcgtccaa acttcggtg ttgaaggaa agttgcgac 
      gatcttctg ttacactac tttgatagt ttgataaag 
      catttagtt tccttgaag tgtgacact aaactcttc 
      acttatgat gcatttttg gatgaaatc aaaagtgtt 
      gtacatcag ggtgaattt tttcatgtt ttgaccatg 
      ttacctcca atttttgct gctgaaaaa gataccaaa 
      gaggtggaa gcgctggag cttcatgac gttattttt 
      catgagagt gaagtcact gagacacat cgggaaaag 
      gcctatttt gttgtgaag gaattcata cgaagaggg 
      tggctgttc caaggcgac tcttga
    mRNA sequence
    • >TC003029 RA
      tacgtaaag atactaatt aaacactat ctaagagaa 
      acgaccttg tccctcatt cgttaataa aagggggac 
      tgcacatta tctcagtac atcgagttg aattattac 
      agagtgtcg tcggtgtga gactcacta tgacatctg 
      ataaaatag aaaacttgg acaatctca tcgccgaga 
      tcattccca agaattatg cttttgttg atgcgaaaa 
      taacacgac taacagctt ctggtgaca attatggca 
      gtcttttac tggctgtgg acatcactg tgaagaatg 
      aaaaagaaa acaaactaa tccacgccg tagctaaga 
      ggccgccgt caaacaaac tcgtgcaag agcttttta 
      atagtcagt tcacttttc ctaacgaag tcggttttt 
      accagacca ttattccgt gtttgaggc agttccagc 
      aagaacaag gtgtcaagg atttgatta gttgtttcc 
      ctgagtttt acacggcca ggttgagta aagacgcga 
      ctggaaaag ttgacgaaa gctctgtat tgttaatca 
      aaaatatca aaaaagagg gtttccaaa ctttggaca 
      gaacagtgg ggtttaacc ttgaacagg ggcggttta 
      ttttgggga aaatggcag agatgcacg ccacaagtc 
      ttgcactga aaattctga gacctgaag aatttaaat 
      cgaaactgg ggccgtttt tacaacagt acaaagtgt 
      ttgagatgg ccgaagagg acaatcgaa aaatgataa 
      acgtgtcat taaatgtgg tgaaagagg atgacgtct 
      gtcggaaat atctacccc agattgaag agtttctct 
      ggaagaatc tcgatttct gtctcacga aaaatatca 
      aaacaagtt cgccgagtc attttctga ccttgaccc 
      attgcgatc tgtgggtga acaatatta tggtcaaat 
      ttgataaga atagccgaa tcactgaag tgaaatttg 
      tcgattttc agttgtatg aatacgctt cgtttgtga 
      gggacgttg ttttcttta ttttcagca gcgtccaaa 
      cttcggtgt tgaaggaaa gttgcgacg atcttctgt 
      tacactact ttgatagtt tgataaagc atttagttt 
      ccttgaagt gtgacacta aactcttca cttatgatg 
      catttttgg atgaaatca aaagtgttg tacatcagg 
      gtgaatttt ttcatgttt tgaccatgt tacctccaa 
      tttttgctg ctgaaaaag ataccaaag aggtggaag 
      cgctggagc ttcatgacg ttatttttc atgagagtg 
      aagtcactg agacacatc gggaaaagg cctattttg 
      ttgtgaagg aattcatac gaagagggt ggctgttcc 
      aaggcgact cttgatttt ttaattttt ttgcttcca 
      tgacaaatg tacgaaaat tagtttgta agaattcaa 
      agatactgt agttttaat taattctgt attttattg 
      atttggcta aataaatat ctaaattac aa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY