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Gene information
General information
TC011413 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_007425.3: 5603697..5605022
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
    TC011413
    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
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05032

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 10.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011413 RA
      MARRVITRI VALLCFVVE SEEKCKVVQ KTSFCDSLQ 
      DLYRNGSLQ ERVIVEQKS GLEPFILLP NERAKDIKF 
      LTINRAINN LANHVFKNF IHLERLILS YNELEALRD 
      QQFQNQNLQ LLQIYDCGV KTIEPLTNL PKLTKLRIT 
      HNKLAKIPT NIFSNLPLE TLALSQNQI TTIEKFAFA 
      NMTKLKKLF LDGNNLTGF NVPDYVTRP ETLDRLWLH 
      QNQLPELTN YMLEGLTNL KILNLGFNS ISRIEPKTF 
      EQTPKLENL VLTNNQLTS IDGAVLPAT GLQNLKILY 
      LDHNRLMFL SSNFLFRLN SLKAMSIGG NPWQCPCLD 
      LVLRWLYDN EVGLKCDKD FFGGKRPVC VVPSRRNSD 
      VCVYSYDQK SYDLFESGY KSYPSVDYC LL
    CDS sequence
    • >TC011413 RA
      atggcgaga cgggtaata acacgaatt gtggccttg 
      ctgtgtttt gtggtcgaa agtgaggaa aaatgcaaa 
      gtggtgcag aaaactagt ttttgtgac agtttgcaa 
      gacttgtac cgtaatggt agcttacaa gagagggtg 
      attgttgag caaaagagc ggccttgaa ccattcata 
      cttctacca aatgaaaga gcaaaggat atcaagttt 
      ctgacgata aatcgagct ataaataac ctagccaat 
      catgtgttt aaaaatttt attcacttg gaacggctc 
      attttatct tacaacgaa ctggaggca ctacgagac 
      caacaattc caaaaccaa aatttgcaa ctgttacaa 
      atttacgac tgcggtgtc aaaaccatt gaaccttta 
      accaacttg cccaaatta accaaacta cgaataaca 
      cataacaaa ctggcaaaa ataccgaca aacattttc 
      agtaacttg ccacttgag actttggcc ttgtcccaa 
      aaccagatc accacaatc gaaaaattc gcctttgcc 
      aacatgaca aaactgaaa aaacttttt ctggatgga 
      aacaacctg accggattt aacgtcccg gattatgtc 
      acacgaccg gaaacccta gaccggctt tggttacac 
      caaaaccaa ctcccggaa cttacaaat tacatgctt 
      gaaggcttg acaaactta aaaattttg aaccttggt 
      tttaactca atttcacga attgaaccg aaaactttt 
      gagcaaacc ccaaaattg gagaattta gttttgacc 
      aataaccaa ttgacaagc atcgatggt gcagttttg 
      ccagcaaca ggactccaa aacttgaaa attttgtat 
      ttggatcac aacagactg atgtttttg tcgtcgaat 
      tttctgttt cgtttgaat tcgttgaag gcgatgtcg 
      atcggaggg aatccgtgg cagtgtccg tgtctggat 
      ttggtcctg aggtggttg tatgataac gaagtggga 
      ctgaagtgc gataaggat ttttttggg gggaaaaga 
      cccgtttgt gtggtgcct tcgaggaga aacagtgat 
      gtttgtgtg tattcgtat gaccagaag agttacgat 
      ttgtttgag agtggttac aagagctac ccttctgtg 
      gattattgt ttgctttag
    mRNA sequence
    • >TC011413 RA
      ggaagaggg aaaaattgg tccatttgt ttgcgtcga 
      gagtaatta aaaaaagta caagcgtga ttaattttg 
      gagcgtcac tgggaatta ccgatttat tatctcaga 
      ggagggatt cagttgagc aatggcgag acgggtaat 
      aacacgaat tgtggcctt gctgtgttt tgtggtcga 
      aagtgagga aaaatgcaa agtggtgca gaaaactag 
      tttttgtga cagtttgca agacttgta ccgtaatgg 
      tagcttaca agagagggt gattgttga gcaaaagag 
      cggccttga accattcat acttctacc aaatgaaag 
      agcaaagga tatcaagtt tctgacgat aaatcgagc 
      tataaataa cctagccaa tcatgtgtt taaaaattt 
      tattcactt ggaacggct cattttatc ttacaacga 
      actggaggc actacgaga ccaacaatt ccaaaacca 
      aaatttgca actgttaca aatttacga ctgcggtgt 
      caaaaccat tgaaccttt aaccaactt gcccaaatt 
      aaccaaact acgaataac acataacaa actggcaaa 
      aataccgac aaacatttt cagtaactt gccacttga 
      gactttggc cttgtccca aaaccagat caccacaat 
      cgaaaaatt cgcctttgc caacatgac aaaactgaa 
      aaaactttt tctggatgg aaacaacct gaccggatt 
      taacgtccc ggattatgt cacacgacc ggaaaccct 
      agaccggct ttggttaca ccaaaacca actcccgga 
      acttacaaa ttacatgct tgaaggctt gacaaactt 
      aaaaatttt gaaccttgg ttttaactc aatttcacg 
      aattgaacc gaaaacttt tgagcaaac cccaaaatt 
      ggagaattt agttttgac caataacca attgacaag 
      catcgatgg tgcagtttt gccagcaac aggactcca 
      aaacttgaa aattttgta tttggatca caacagact 
      gatgttttt gtcgtcgaa ttttctgtt tcgtttgaa 
      ttcgttgaa ggcgatgtc gatcggagg gaatccgtg 
      gcagtgtcc gtgtctgga tttggtcct gaggtggtt 
      gtatgataa cgaagtggg actgaagtg cgataagga 
      tttttttgg ggggaaaag acccgtttg tgtggtgcc 
      ttcgaggag aaacagtga tgtttgtgt gtattcgta 
      tgaccagaa gagttacga tttgtttga gagtggtta 
      caagagcta cccttctgt ggattattg tttgcttta 
      ggttttcgg caataaaac aaatgaatt gtg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY