Status
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Gene information
General information
TC013240 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: 11651759..11672099
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
    TC013240
    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
    {{ goGene }}
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05402

    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: 70.0% (includes death as pupa, adult)

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


    adult lethality - Number of animals showing the phenotype: 6 (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: % (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
    • >TC013240 RA
      MSKYYYLDV SLRLHDNTA YEVITDAYF 
      KKHIVDAVS ALFGESAAC VDIDVLRYN 
      LAIKRGILR VPSEYYVKI RSSLTLCGS 
      YNNISCSYK IHKTSPILL NLQGPQGKD 
      IVIFATPED HKVPSTVTL PEPDPQPGL 
      ILPNGDINW NCPCLGGMA TGPCGVEFR 
      NAFSCFHYS EAEPKGSDC YELFKTMQN 
      CMQKYPTLY NKDLADDDD FSSMDSGDK 
      SAAPSSEGA PKSDKKS
    CDS sequence
    • >TC013240 RA
      atgagcaaa tactattat ttagacgtt tccttgaga 
      ttgcacgat aataccgcc tatgaggta ataacagac 
      gcgtacttt aaaaaacac atcgttgat gcagtgtct 
      gcgttattt ggagaatct gcagcttgt gtagacata 
      gacgtccta agatacaat ctagcgatc aaacgcggt 
      attttaaga gtaccctcc gaatactac gtgaaaatc 
      cgcagtagt ctaaccctg tgtggtagc tacaacaac 
      atcagttgt tcctacaag attcataag accagcccc 
      attttgctg aatctccag gggccccag ggcaaggat 
      atagtgatt tttgccacc ccagaggac cacaaggtc 
      ccaagcact gtgactctg ccagagcct gacccccag 
      ccagggctg atcctccca aacggggac atcaactgg 
      aactgcccc tgtctaggg ggcatggca acggggccc 
      tgtggggtg gagtttagg aacgcattt agttgtttt 
      cactattcc gaggcggaa cctaaaggt agcgattgc 
      tatgaatta tttaagacc atgcaaaat tgtatgcaa 
      aaatatcca actttgtac aacaaagac ttagccgac 
      gatgatgac tttagctcg atggattca ggcgacaaa 
      agcgcagcg cctagttct gaaggcgct ccaaagtcg 
      gacaaaaaa tcataa
    mRNA sequence
    • >TC013240 RA
      tcatacttg cccatcttt cttacacaa gacttgaca 
      gagtgaaaa gaaattgta aaagtaata acaatcggc 
      cggtcgtgg ggtccattt ggtttaaaa agtccgtta 
      gaggcgcat tttttttgt tggaaatgt cgaaacgct 
      ggaaaagaa gatttatac ctttgataa caacttcaa 
      tagctatgt tccgcttaa tccctcatc accccagcg 
      atcaaatat ccgaattcc aaaacaata cagagtctt 
      cccttcgac ccttttgtc gaaccaccc taacctaca 
      ttctgtgaa aagtaaagt ggcatgtcg tgattagcc 
      ccgggggtg cagacgcca tcagagcac agcgggaag 
      tgttgttta ctcggtccc ttccaccct cttgcttcg 
      tcgtaaact tcccaactt atttcatag cgaatagga 
      gcaattatt taattcggt cgtgtcgct gaaaaacta 
      ccactggag ataatgacg gccggaggt taatattcc 
      tcggctacg tttctaagc gctcggaaa agaaccagt 
      tgttatcca aaagtcatt aacaaaatc gcgtgcgag 
      tactgtata atataacaa acaactcgt tattttcct 
      tactccaaa taactgtta tttgaagcg ttccacggc 
      tttgttttc gtgtttatc actcaaagc cagcgtcac 
      cgtccccag cccgccgat tccacacac gtacagata 
      ccacatggt cgcatttgc atttgcacg gcatttttc 
      aaaattcaa aagctcaga gcggttttg tcaccgcgt 
      gctttgcca ttccgagcg gaagaatta gttgcagat 
      ggctgagtg gatgtataa tttccgtaa tagctgctg 
      cttcggaaa ggatgcgtt ttttcctct aatacggac 
      ctggatgct tatcttgtt cgagtgcat tttagcccg 
      ccacggcca ggcaactaa atgaacgtg cagtgaata 
      gagactgat ggtaacaac ttatgtgag attcatgct 
      acagataaa aggttaatg gcatgcact ctccacatg 
      gctgcatgt gtgacaaaa atcgcgccg ggggaccca 
      tgcgggcct gggggactc cagcagacg gacgccaat 
      ttaccacga acgttcaaa cgaaccgtc attaaaacc 
      tcaagcgaa ataagtgat ttcgagcaa cactgtgat 
      gaatttcgt tcaggaaat tatatggaa gttgcatgt 
      aggtaatgg cttttaaat gtttctacg tttgatgga 
      taatatccg gccgaccga ctcgtaaat tatttcgat 
      aattactcc caaagtttc acagccaca tcttactat 
      caccctact caatttttt attacccca taacgtctt 
      ccttcaaaa aatcaaacg gattctgag aaatgcctt 
      tgaagccct tatttgtcg aaaaatgta tttaagatg 
      caatgttta tacttttaa aaggtgtcg ctaaatttc 
      caggctttg gaaagaaag ttgatatgt ttgtgttta 
      caaaaatta cattgtatt tattcgtat tatttgttc 
      caatgaatg cgtttgttc tgttttctc gtattctta 
      ctgcacttt ttacagtta ctaatatta ctatagata 
      ttaaaaccc tagctgttt taaaagtcg aaataacat 
      cgaaaaaca ttttcttat ttatttgcg aaataaatt 
      gtaagttat tttgcacta attgatcaa cagttgtaa 
      ccattgagg cattttact gtatcccat aatttttat 
      gtattgttc accaaatta gctagtctc tttacgttt 
      ccacgggtg gccttcctg ctgattcta gctttttgt 
      aggttaaat tcgctggaa aattatttc ccggtttaa 
      aacagtaat tttcctcaa tggcaagta gttatgtaa 
      attagaatg agcaaatac tattattta gacgtttcc 
      ttgagattg cacgataat accgcctat gaggtaata 
      acagacgcg tactttaaa aaacacatc gttgatgca 
      gtgtctgcg ttatttgga gaatctgca gcttgtgta 
      gacatagac gtcctaaga tacaatcta gcgatcaaa 
      cgcggtatt ttaagagta ccctccgaa tactacgtg 
      aaaatccgc agtagtcta accctgtgt ggtagctac 
      aacaacatc agttgttcc tacaagatt cataagacc 
      agccccatt ttgctgaat ctccagggg ccccagggc 
      aaggatata gtgattttt gccacccca gaggaccac 
      aaggtccca agcactgtg actctgcca gagcctgac 
      ccccagcca gggctgatc ctcccaaac ggggacatc 
      aactggaac tgcccctgt ctagggggc atggcaacg 
      gggccctgt ggggtggag tttaggaac gcatttagt 
      tgttttcac tattccgag gcggaacct aaaggtagc 
      gattgctat gaattattt aagaccatg caaaattgt 
      atgcaaaaa tatccaact ttgtacaac aaagactta 
      gccgacgat gatgacttt agctcgatg gattcaggc 
      gacaaaagc gcagcgcct agttctgaa ggcgctcca 
      aagtcggac aaaaaatca taagaactt aaaggctaa 
      tctagtttt tgttatagt ttaagaaga caatctttc 
      ctaatttgt ctagttttt tctaattgt tacatgaat 
      gttactaca caattgtaa cgtttgaaa gtttttttt 
      taataaatt tgttttgca ttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY