Status
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Gene information
General information
TC014413 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: 10219527..10222336
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
    TC014413
    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_05628

    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: 100.0% (includes death as pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


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


    adult lethality immediately after eclosion - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection


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


    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: 100.0% (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: 10 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014413 RA
      MADADDLLD YEDEENPEQ TVAETVGAG DQKKGIKGT 
      YVSIHSSGF RDFLLKPEI LRAIVDCGF EHPSEVQHE 
      CIPQAVLGM DILCQAKSG MGKTAVFVL ATLQQLEPT 
      ENVVYVLVM CHTRELAFQ ISKEYERFS KYMPNIKVG 
      VFFGGLSIQ KDEEVLKNN CPHIVVGTP GRILALVRS 
      KKLNLKHLK HFILDECDK MLELLDMRR DVQEIYRNT 
      PHGKQVMMF SATLSKEIR PVCKKFMQD PMEVYVDDE 
      AKLTLHGLQ QHYVKLKEN EKNKKLFEL LDVLEFNQV 
      VIFVKSVQR CIALAQLLT EQNFPAIGI HRGMNQEER 
      LSRYQQFKD FQKRILVAT NLFGRGMDI ERVNIVFNY 
      DMPEDSDTY LHRVARAGR FGTKGLAVT FVSEESDAK 
      ILNEVQDRF DVNITELPD EIDLSTYIE GR
    CDS sequence
    • >TC014413 RA
      atggccgat gccgatgat cttttagac tacgaagac 
      gaagaaaat ccggaacaa accgttgcc gagaccgtc 
      ggggccggt gaccagaag aagggcatc aagggtact 
      tacgtgtcc atccacagt tcaggcttc agggatttt 
      ctcctgaaa ccggaaatt ttgcgcgcc attgttgac 
      tgcggtttt gagcacccg tctgaagtg caacacgaa 
      tgcatccca caggcagtt cttggtatg gacatcttg 
      tgccaagcc aagtccggt atgggcaag actgcagtg 
      ttcgtcctg gcgacgctt cagcagttg gagccaacc 
      gaaaacgtg gtttacgtg cttgtaatg tgccacacg 
      cgcgaattg gccttccaa atcagcaaa gagtacgag 
      cggttcagt aaatacatg ccaaacatc aaagtcggt 
      gtgtttttc ggcggcttg tctatacaa aaggacgag 
      gaggtgttg aagaataat tgcccccat atcgtcgtt 
      gggacaccg ggacgcatc ctcgccttg gtccggtcc 
      aagaaactc aatctcaag catctcaaa catttcatt 
      cttgacgag tgcgacaag atgctggag ttattagat 
      atgaggagg gacgtgcaa gaaatttac cgtaacacg 
      ccgcacggc aagcaagta atgatgttc agcgccacc 
      ctaagtaaa gaaattcgc cccgtctgc aagaagttt 
      atgcaagat ccgatggaa gtttatgtg gacgatgaa 
      gcgaaatta actctgcac ggacttcag caacattac 
      gttaaacta aaggaaaat gagaaaaac aaaaaattg 
      tttgagctg cttgatgtt ttggaattt aaccaggtt 
      gttattttc gtcaaatca gtccaacga tgtattgct 
      ttggcgcaa ctattgacg gaacagaat ttccccgcc 
      attggcatt cacagaggt atgaaccaa gaagaacgt 
      ctttcacgt taccaacaa tttaaagac ttccaaaag 
      agaattttg gtcgccacg aatttgttt ggcagaggc 
      atggatatt gaacgagta aatatcgtt tttaactac 
      gacatgcct gaggattca gatacttac ttacatcgt 
      gtggcaaga gctggtcgt tttggtact aaaggtctt 
      gctgttact tttgtatca gaagaaagc gatgcgaaa 
      atcttaaat gaagtgcaa gacaggttt gatgttaac 
      attacggaa ttaccggac gaaattgat ctcagcaca 
      tatattgaa ggacgatga
    mRNA sequence
    • >TC014413 RA
      tcgccatca ttcgtgttg gcgtcgttc acttcgcgt 
      tgtcttgtt gtcgccaag aaacccctt aaaataaca 
      gtcatcccg gttttttca agtcaaatt tttccagaa 
      ttgcgttga aaacgcttt gaattcggt gtttttgtt 
      gttattttc gtgttaaac ccggttttt aaaaagccg 
      ctacaatgg ccgatgccg atgatcttt tagactacg 
      aagacgaag aaaatccgg aacaaaccg ttgccgaga 
      ccgtcgggg ccggtgacc agaagaagg gcatcaagg 
      gtacttacg tgtccatcc acagttcag gcttcaggg 
      attttctcc tgaaaccgg aaattttgc gcgccattg 
      ttgactgcg gttttgagc acccgtctg aagtgcaac 
      acgaatgca tcccacagg cagttcttg gtatggaca 
      tcttgtgcc aagccaagt ccggtatgg gcaagactg 
      cagtgttcg tcctggcga cgcttcagc agttggagc 
      caaccgaaa acgtggttt acgtgcttg taatgtgcc 
      acacgcgcg aattggcct tccaaatca gcaaagagt 
      acgagcggt tcagtaaat acatgccaa acatcaaag 
      tcggtgtgt ttttcggcg gcttgtcta tacaaaagg 
      acgaggagg tgttgaaga ataattgcc cccatatcg 
      tcgttggga caccgggac gcatcctcg ccttggtcc 
      ggtccaaga aactcaatc tcaagcatc tcaaacatt 
      tcattcttg acgagtgcg acaagatgc tggagttat 
      tagatatga ggagggacg tgcaagaaa tttaccgta 
      acacgccgc acggcaagc aagtaatga tgttcagcg 
      ccaccctaa gtaaagaaa ttcgccccg tctgcaaga 
      agtttatgc aagatccga tggaagttt atgtggacg 
      atgaagcga aattaactc tgcacggac ttcagcaac 
      attacgtta aactaaagg aaaatgaga aaaacaaaa 
      aattgtttg agctgcttg atgttttgg aatttaacc 
      aggttgtta ttttcgtca aatcagtcc aacgatgta 
      ttgctttgg cgcaactat tgacggaac agaatttcc 
      ccgccattg gcattcaca gaggtatga accaagaag 
      aacgtcttt cacgttacc aacaattta aagacttcc 
      aaaagagaa ttttggtcg ccacgaatt tgtttggca 
      gaggcatgg atattgaac gagtaaata tcgttttta 
      actacgaca tgcctgagg attcagata cttacttac 
      atcgtgtgg caagagctg gtcgttttg gtactaaag 
      gtcttgctg ttacttttg tatcagaag aaagcgatg 
      cgaaaatct taaatgaag tgcaagaca ggtttgatg 
      ttaacatta cggaattac cggacgaaa ttgatctca 
      gcacatata ttgaaggac gatgattgc acagtcgtg 
      gtgtaaggt gtatttact tgtgttttt cattaattt 
      gagtgttgg gtaattttt tgttaccca cttagaata 
      tttaagttt caatattcg acaagttcc attttttta 
      tgtgaatgt attctaata aatgtcaca attataa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY