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Gene information
General information
TC013308 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: 11229324..11231331
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
    TC013308
    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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    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_09105

    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: < 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
    • >TC013308 RA
      MISARFSHK FFKRINLNK FYSSSVPKF PRRIFSGIQ 
      PTGQIHLGN YLGAIAQWV KLQENNEDM ILSIVDLHS 
      ITLPQDPKT LSKNILEMA ATLLACGID PSKVILFQQ 
      SMVPAHTHL SWCLGCICT MPRLAHLPA YKEKSANLK 
      DIPLGLFVY PVLQAADIL AYKATHVPV GEDQAQHIQ 
      LTQDLARMF NNRFGETFP TPHCIFPGS DFARLRSLR 
      DPAKKMSKS DPDPKSRIC LIDPPDEIV KKIKKSVTD 
      FTSEVTYDP ENRPGVANL ISIHSFVTG KTVSQICDE 
      AKNLNTGQY KLQVADAVV SHVAPIQKK ISDLLHNQD 
      FLLQVLESG AEKATEISE ATLQEVKDK LGLQFKRKT 
      VHKHKLNL
    CDS sequence
    • >TC013308 RA
      atgatttcg gcacgtttt tcacacaaa ttcttcaaa 
      cgaatcaac ctcaataaa ttctactca tcttctgtt 
      cctaaattt cctcggcga attttctca ggaattcaa 
      ccaaccggt cagatacac ttaggcaat tacctcggg 
      gctatagca caatgggtt aaactccaa gaaaataac 
      gaggatatg attttaagt attgtagat ttgcattct 
      atcactttg ccacaagac cccaaaacc ttgtctaag 
      aatatacta gaaatggca gccacgtta ttagcttgt 
      gggatagac ccttccaag gttatttta ttccaacaa 
      tcgatggta cctgcccac acacacctg tcttggtgc 
      ttggggtgc atttgcaca atgcctaga cttgcacat 
      ctaccagcc tataaagaa aagtcggca aacctgaaa 
      gacatccct ttgggcctc ttcgtttac ccggtttta 
      caagcggct gatatttta gcttacaag gccacccat 
      gtgcctgtt ggcgaagac caagcccag cacatccaa 
      ctcacccaa gacctagcc agaatgttt aacaaccgc 
      tttggggag acattcccc acccctcac tgtattttc 
      cccggaagc gacttcgca agactgcgg agtctcaga 
      gaccccgcc aaaaaaatg tcaaagtcg gaccccgac 
      cccaagagc agaatttgt ctaattgac ccacctgac 
      gaaattgtg aaaaaaatc aaaaaatcg gtcaccgac 
      ttcacgtca gaggtgacc tacgacccg gaaaatagg 
      ccaggggtc gcaaactta atcagcatt cattcgttc 
      gtgaccgga aaaactgta tcacagatt tgtgacgaa 
      gccaaaaat ttaaatact ggacaatat aagctgcaa 
      gttgccgat gcggtggtg agtcatgtc gcccccata 
      cagaaaaaa atcagcgat ttgttgcat aaccaagac 
      tttttgcta caagtgctt gaaagtggc gctgaaaaa 
      gcgaccgag atatcagag gcaacgctt caggaagtt 
      aaggataag ttagggttg caatttaag cgcaaaact 
      gtacataaa cataaactg aatttataa
    mRNA sequence
    • >TC013308 RA
      ataggaatc gaaaagtga gaattcgga caaatgaca 
      caactctaa cctcaaatt tcgcaaaaa acgaaagat 
      agaaaaaaa tgatttcgg cacgttttt cacacaaat 
      tcttcaaac gaatcaacc tcaataaat tctactcat 
      cttctgttc ctaaatttc ctcggcgaa ttttctcag 
      gaattcaac caaccggtc agatacact taggcaatt 
      acctcgggg ctatagcac aatgggtta aactccaag 
      aaaataacg aggatatga ttttaagta ttgtagatt 
      tgcattcta tcactttgc cacaagacc ccaaaacct 
      tgtctaaga atatactag aaatggcag ccacgttat 
      tagcttgtg ggatagacc cttccaagg ttattttat 
      tccaacaat cgatggtac ctgcccaca cacacctgt 
      cttggtgct tggggtgca tttgcacaa tgcctagac 
      ttgcacatc taccagcct ataaagaaa agtcggcaa 
      acctgaaag acatccctt tgggcctct tcgtttacc 
      cggttttac aagcggctg atattttag cttacaagg 
      ccacccatg tgcctgttg gcgaagacc aagcccagc 
      acatccaac tcacccaag acctagcca gaatgttta 
      acaaccgct ttggggaga cattcccca cccctcact 
      gtattttcc ccggaagcg acttcgcaa gactgcgga 
      gtctcagag accccgcca aaaaaatgt caaagtcgg 
      accccgacc ccaagagca gaatttgtc taattgacc 
      cacctgacg aaattgtga aaaaaatca aaaaatcgg 
      tcaccgact tcacgtcag aggtgacct acgacccgg 
      aaaataggc caggggtcg caaacttaa tcagcattc 
      attcgttcg tgaccggaa aaactgtat cacagattt 
      gtgacgaag ccaaaaatt taaatactg gacaatata 
      agctgcaag ttgccgatg cggtggtga gtcatgtcg 
      cccccatac agaaaaaaa tcagcgatt tgttgcata 
      accaagact ttttgctac aagtgcttg aaagtggcg 
      ctgaaaaag cgaccgaga tatcagagg caacgcttc 
      aggaagtta aggataagt tagggttgc aatttaagc 
      gcaaaactg tacataaac ataaactga atttataaa 
      aaacttttg caatcaccg attgtatga ttacatttt 
      gttcctatt acctaaaag ccagcttcc ttgattaac 
      gcgcgtttt tcgttgcct gttaccaca gttacaaag 
      taaactagt gcctttttg tttaaaaaa caccactaa 
      taacaaata accatagta actgtctac ttgtagtac 
      ggtttcctt atggattta aaaaactgg atcattaat 
      tgtagaagc tgtgttaca tcaaaaatg aaaacagta 
      aattataca ctgagacag agtaatcaa aagtgtaat 
      ttttcaatt tacagagat agggtatag aaccaagcg 
      ttctgtgcc tacaatatg taccagtgg tgttccaag 
      ttttgtggt cgaagcaac aataaatat ttctagtcg 
      aataaaaaa gtacataat taattacgc taattttta 
      tggtatagc tgagacaat tttggattt tttttaagt 
      tattatatc aaagtttca aatgacggc gcaattaat 
      tctcttaga ctatcaaca aacttgatt tttcgtctt 
      attttaaat caaatgttt aaaacaatt gcgtttttt 
      atattttta ctttaaatt atcaaatta gtttttgtc 
      acagtacac aatttaga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY