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Gene information
General information
TC013277 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: 6031411..6033333
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
    TC013277
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05412

    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: 40.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized -
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013277 RA
      MLVRSLFIL VVTAQVLNA DENCRTPDN EEGDCKPIN 
      KCQPLYSLL ERRPITAST ADYLRRSQC GFVGTYPKV 
      CCPSGRTTI TTNPPPVVE GPTENTDVE SVTSNLLPG 
      GDVCGLNTQ SRIYGGEKT DLDEFPWMA LIEYEKPGG 
      SRGFYCGGV LISNKYILT AAHCVKGKD LPKTWKLVS 
      VRLGEYNTE TDQDCINNG FGEDCAPPP VNVPVVERI 
      AHESYDPND VNQYHDIAL LRLKRSVTF SDYVRPICL 
      PTSNEELRR SFIGQKLFV AGWGKTENR SESNIKLKV 
      QVPVKQTSE CSSTYRVAN VRLGPGQMC AGGEKGRDS 
      CRGDSGGPL MTVIRDKNK DDHWYAAGV VSFGPSPCG 
      MENWPGVYT KVSKYVNWI VNKLKP
    CDS sequence
    • >TC013277 RA
      atgttagtg aggagtctc tttattctg gtagtgaca 
      gcacaagtt ttaaacgca gatgagaat tgccgaaca 
      ccggataat gaggagggc gactgcaag cccatcaac 
      aaatgccaa cccctgtac tccctctta gaaaggcgt 
      cccatcaca gccagcact gccgattac cttcgccga 
      tcgcaatgt ggtttcgtc ggcacttac cccaaagtg 
      tgttgtcct tctggacgg acaactatt accacaaat 
      ccgccaccg gttgtagaa ggaccgact gaaaacacc 
      gatgttgaa tcggtgact agcaatttg ctccctggg 
      ggcgacgtt tgcggccta aacacacaa agcaggatc 
      tacggaggg gagaaaaca gacttggac gaattccct 
      tggatggct ctgattgaa tacgaaaaa cctggtggt 
      agccgaggt ttctactgc ggtggggtt ttaatcagt 
      aacaaatac attttaacg gcggctcat tgcgtcaaa 
      ggcaaggac ttgccaaag acgtggaaa ctagtgagc 
      gtccgcttg ggcgaatac aacactgaa actgaccaa 
      gactgcatc aacaacggc tttggtgaa gactgtgct 
      ccaccccca gtcaacgtc cctgtagtt gaaagaata 
      gcacatgaa agttacgat ccgaatgac gtaaaccag 
      tatcacgat atcgccttg ctgaggctg aaacgctct 
      gtgacattt tcagactat gtccgaccc atctgctta 
      ccaacctca aacgaagaa cttcgacgg tcattcatt 
      ggccaaaaa ctgtttgtc gccggttgg ggcaaaact 
      gagaacagg tctgaaagc aacataaaa ctgaaagtc 
      caggttcca gttaaacaa acttccgag tgtagctct 
      acatatcgc gtcgctaat gtgagactt ggcccagga 
      cagatgtgt gcaggtggt gaaaaaggg cgcgattct 
      tgtagaggt gatagtggt ggtccgctg atgaccgtt 
      atcagagac aaaaacaag gacgaccat tggtacgct 
      gcaggagtc gtttcattt ggaccgtcg ccgtgtgga 
      atggaaaat tggccagga gtttatacc aaagtttct 
      aaatacgtc aactggatt gttaataag ctaaaacct 
      taa
    mRNA sequence
    • >TC013277 RA
      caacaacaa atgaccaat atttactcc attagcaat 
      tataaacag aaagagatg acaaaatgt gtaaaattt 
      gcaaagagg ggcgatgga gttttgatg acgtcttcc 
      aagccatta gtatttcca gttcataga acagacggt 
      ggactttcc aaggcaggc gagatactc acacaagat 
      cgctcgaca tcggtatgg gtcagtgag aacccaagg 
      cactcatat tattcataa ttgcaactt tgtttacaa 
      tgttagtga ggagtctct ttattctgg tagtgacag 
      cacaagttt taaacgcag atgagaatt gccgaacac 
      cggataatg aggagggcg actgcaagc ccatcaaca 
      aatgccaac ccctgtact ccctcttag aaaggcgtc 
      ccatcacag ccagcactg ccgattacc ttcgccgat 
      cgcaatgtg gtttcgtcg gcacttacc ccaaagtgt 
      gttgtcctt ctggacgga caactatta ccacaaatc 
      cgccaccgg ttgtagaag gaccgactg aaaacaccg 
      atgttgaat cggtgacta gcaatttgc tccctgggg 
      gcgacgttt gcggcctaa acacacaaa gcaggatct 
      acggagggg agaaaacag acttggacg aattccctt 
      ggatggctc tgattgaat acgaaaaac ctggtggta 
      gccgaggtt tctactgcg gtggggttt taatcagta 
      acaaataca ttttaacgg cggctcatt gcgtcaaag 
      gcaaggact tgccaaaga cgtggaaac tagtgagcg 
      tccgcttgg gcgaataca acactgaaa ctgaccaag 
      actgcatca acaacggct ttggtgaag actgtgctc 
      cacccccag tcaacgtcc ctgtagttg aaagaatag 
      cacatgaaa gttacgatc cgaatgacg taaaccagt 
      atcacgata tcgccttgc tgaggctga aacgctctg 
      tgacatttt cagactatg tccgaccca tctgcttac 
      caacctcaa acgaagaac ttcgacggt cattcattg 
      gccaaaaac tgtttgtcg ccggttggg gcaaaactg 
      agaacaggt ctgaaagca acataaaac tgaaagtcc 
      aggttccag ttaaacaaa cttccgagt gtagctcta 
      catatcgcg tcgctaatg tgagacttg gcccaggac 
      agatgtgtg caggtggtg aaaaagggc gcgattctt 
      gtagaggtg atagtggtg gtccgctga tgaccgtta 
      tcagagaca aaaacaagg acgaccatt ggtacgctg 
      caggagtcg tttcatttg gaccgtcgc cgtgtggaa 
      tggaaaatt ggccaggag tttatacca aagtttcta 
      aatacgtca actggattg ttaataagc taaaacctt 
      aatttagag gattgttgt aaatgtgat ttttattaa 
      gaaaatcgg agctaataa agttttttg aactat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY