Status
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Gene information
General information
TC008975 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_007422.5: 12839837..12842204
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
    TC008975
    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_10349

    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: 3 (3 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: % (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
    • >TC008975 RA
      MYSPTTDVV DQLPSVDRV TNWDIAGFV ISIISHILD 
      VIFDCNIAY RYYVHQQFA YFFTTLGFI LVPAFVNTV 
      FSIRMYMLD KDSDRSATL TDKFTKRRL CCFAVLIFQ 
      LAPVLRYFD ALQYAIKSK KAEKNKDQE NQRKYYELM 
      VKEDSDVAL LRVLECFLE AAPQQILQL AIIFSTNSN 
      DQDSLDNSD TFTLVHQLL SIGSSFVSM AWSMASYQR 
      LLRVSLKNK NNISWPGTL VHFMWHFLV TVSRILCIS 
      VIASKYLVP TILVIVLHW FVMTMWLSC TNQKNNFCK 
      HNKVYDMFF YSIFGTVYI FTPVTLVEG PTFLKYVFF 
      YVVLFVENT IANVVWYCN ADTTLQKQI YYTPIVYLN 
      VIPFFAGLT FMLLYYKVF HPSTGYHRT QAVLPS
    CDS sequence
    • >TC008975 RA
      atgtactcc cccacgacc gacgtagtg gaccaactg 
      ccctcagtg gaccgagtg accaactgg gacattgct 
      ggctttgtc atatctata ataagccac attctggac 
      gtgattttc gactgtaac attgcctac cgatattac 
      gtccaccaa caattcgcc tatttcttc accactctg 
      gggttcata ctcgtccca gcctttgta aatactgtc 
      ttcagtata aggatgtac atgctagat aaagatagt 
      gataggagc gcaactctg actgataaa tttaccaaa 
      aggagatta tgctgtttc gctgtgttg atatttcaa 
      ttagcgcca gtcttgcga tactttgat gccttgcaa 
      tacgccatc aagtcaaag aaagccgaa aagaacaag 
      gaccaggag aatcagcgg aagtactac gaacttatg 
      gtcaaagaa gactcggat gtcgccctg ttgagggtc 
      cttgagtgc ttccttgaa gcggccccc caacaaatc 
      ttacaactc gcaattatt ttcagtaca aatagcaac 
      gatcaggac agcttagac aacagtgat acttttacc 
      ttggtccat caattgtta tcaattggt agttcgttt 
      gttagtatg gcgtggtca atggcctct tatcagaga 
      ctgttacgt gtctctctc aaaaacaaa aacaacatc 
      tcatggcca gggacacta gtccatttc atgtggcac 
      tttctagtc acagtttca aggatcctg tgtatcagt 
      gtgatagca tccaagtac ttggtgcct acgattctg 
      gtgattgtt ctccactgg ttcgtgatg acaatgtgg 
      ctgtcttgt acgaaccaa aaaaataat ttttgtaaa 
      cataacaag gtctatgac atgtttttc tactcaatt 
      tttggtact gtgtatatt ttcacgcca gttacgtta 
      gtcgaaggc ccgactttt ctgaaatat gttttcttt 
      tacgtcgtg ctgtttgta gaaaatacg atagctaat 
      gttgtgtgg tactgtaat gctgatact actctgcag 
      aaacagatt tattataca cctattgtg tatttgaac 
      gttattccg ttttttgcg ggactgacg ttcatgttg 
      ctgtactat aaagtcttc catcctagc acagggtat 
      cacaggaca caagctgtc cttcctagt taa
    mRNA sequence
    • >TC008975 RA
      actcaggtg gagggtcag tgtgtggtt gtgtaacac 
      gtgcgtaat tagataaat ttaattgcg attgtgtac 
      tgacgttag aaaaattac gtcagggga taaattccc 
      taatggcta gaaaaatgg tttgacgtt tggttttca 
      atttttcgc atgttattc aagaatgag gggttaaag 
      gacaacgtg atgattcat ctgcgtcca aacaatgga 
      ttataaaat ttggctaat tgctttcca atgaacaag 
      tagctcaac caccagtgt gatgttcaa tgcctcgaa 
      gaagagtta ttcaatcgt gaataatga caataattt 
      atcaaacga agatgtact cccccacga ccgacgtag 
      tggaccaac tgccctcag tggaccgag tgaccaact 
      gggacattg ctggctttg tcatatcta taataagcc 
      acattctgg acgtgattt tcgactgta acattgcct 
      accgatatt acgtccacc aacaattcg cctatttct 
      tcaccactc tggggttca tactcgtcc cagcctttg 
      taaatactg tcttcagta taaggatgt acatgctag 
      ataaagata gtgatagga gcgcaactc tgactgata 
      aatttacca aaaggagat tatgctgtt tcgctgtgt 
      tgatatttc aattagcgc cagtcttgc gatactttg 
      atgccttgc aatacgcca tcaagtcaa agaaagccg 
      aaaagaaca aggaccagg agaatcagc ggaagtact 
      acgaactta tggtcaaag aagactcgg atgtcgccc 
      tgttgaggg tccttgagt gcttccttg aagcggccc 
      cccaacaaa tcttacaac tcgcaatta ttttcagta 
      caaatagca acgatcagg acagcttag acaacagtg 
      atactttta ccttggtcc atcaattgt tatcaattg 
      gtagttcgt ttgttagta tggcgtggt caatggcct 
      cttatcaga gactgttac gtgtctctc tcaaaaaca 
      aaaacaaca tctcatggc cagggacac tagtccatt 
      tcatgtggc actttctag tcacagttt caaggatcc 
      tgtgtatca gtgtgatag catccaagt acttggtgc 
      ctacgattc tggtgattg ttctccact ggttcgtga 
      tgacaatgt ggctgtctt gtacgaacc aaaaaaata 
      atttttgta aacataaca aggtctatg acatgtttt 
      tctactcaa tttttggta ctgtgtata ttttcacgc 
      cagttacgt tagtcgaag gcccgactt ttctgaaat 
      atgttttct tttacgtcg tgctgtttg tagaaaata 
      cgatagcta atgttgtgt ggtactgta atgctgata 
      ctactctgc agaaacaga tttattata cacctattg 
      tgtatttga acgttattc cgttttttg cgggactga 
      cgttcatgt tgctgtact ataaagtct tccatccta 
      gcacagggt atcacagga cacaagctg tccttccta 
      gttaataat caaggatca aagaggagt aggtgaata 
      tttttctgc agtgactct gatctccaa gtacgtact 
      caaatgaat cctctttgg tttttagtt ataatttta 
      ttaacaatg tgatgtcta atttattgt gttagtaga 
      attgatgtg tattttact aagtaggaa tggccaaag 
      tatgtcaat tagttgtat ttttcctat tgatttgtg 
      tttgttggt gcaatattt agttgaatt ggtccagtt 
      ttgagatta ttttagttg tatgcacaa ttgtggcga 
      tggaatcga gctccatga cttagcaag ttgtaacct 
      tcataaaac cagtgcctt aatttatac t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY