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Gene information
General information
TC000297 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_007417.3: 13341079..13342619
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
    TC000297
    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_00062

    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 nutritional state bad (cachectic) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 7 (11 dpi)
    Days post injection


    Fertility
    egg chamber irregular - Number of animals showing the phenotype: 2

    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: 90.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    larva lethality late (L7) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    pupation not fulfilled (died as prepupa) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection



    larva lethality late (L7) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000297 RA
      MGESSSDES DTTFQLYKD RREWKDVTP VPQDDGDQP 
      IVAIDYTEQ FKDVFDYFR AVLQSGEKS ERALNLTKD 
      AAALNPANY TVWQYRREI LKALNKDLN EEMDFIEKI 
      IVYNQPKNY QVWHHRKVL VEWLQDAAK EKYLTETVL 
      AKDAKNYHA WQHRQWIIK TFNLYDGEL EYIDSLISD 
      DIRNNSAWN QRYFVVMGT TGFTEEVLN REIDYALSN 
      IKVVTENES AWNYLRGVL LHDKCGLSR NKKVTEFCE 
      ELYNSGNRS PFLLALLVD MCSEQVSQG NEDPLYNLE 
      RAKNLCNEL SEKYDTVRA KYWQFMAET IEKKSKKEE 
      SQVEAEN
    CDS sequence
    • >TC000297 RA
      atgggtgaa agtagcagt gacgagagt gataccaca 
      ttccagctg tacaaagac cgccgggaa tggaaagat 
      gtgaccccg gtgccccag gatgacggg gatcagcca 
      atagtcgca atcgattac actgaacag tttaaggat 
      gtttttgat tatttccga gctgttttg caaagcggg 
      gagaaatcg gaacgggcc ctgaacctt accaaggac 
      gctgcggcc ctaaatccg gcgaattat acagtttgg 
      cagtacagg cgtgaaatt ttgaaagct ttgaataag 
      gatttgaac gaggagatg gactttatt gagaagatt 
      attgtttat aatcagccg aaaaattac caggtttgg 
      caccacagg aaggtgcta gtggagtgg ctgcaagat 
      gcagcaaag gagaagtac ttgactgag accgtttta 
      gcgaaagat gcgaaaaat taccacgcc tggcaacac 
      aggcagtgg ataattaaa acgttcaat ttgtatgat 
      ggagagctt gagtacatt gatagtctc atttcggac 
      gatatcagg aacaactca gcttggaat caaagatat 
      ttcgtagtt atgggcaca accgggttt acagaagaa 
      gtcttaaat agagaaatt gactacgct ctgtccaat 
      attaaagtc gtaacagag aacgaaagc gcttggaat 
      tacttaaga ggcgtgtta ttgcatgat aagtgtggc 
      cttagccgc aacaaaaaa gtcactgaa ttttgtgag 
      gaattatac aactcggga aacaggtct ccattttta 
      ttagccctc cttgttgat atgtgttca gagcaagtt 
      tcccaaggc aatgaagac ccactttac aatttggaa 
      agagccaaa aatttgtgt aacgaactt tccgaaaaa 
      tatgacacc gtcagagcg aaatattgg cagtttatg 
      gccgaaacc attgagaag aaaagcaag aaggaggag 
      tcacaagtc gaagcagaa aattaa
    mRNA sequence
    • >TC000297 RA
      cgcacgccc actcggccc atagcaaag agccctgcg 
      tcaaactat tgacaatcc gaattttgt ggttaggta 
      aaaaagggg cgacttttt gattgaaaa aatgggtga 
      aagtagcag tgacgagag tgataccac attccagct 
      gtacaaaga ccgccggga atggaaaga tgtgacccc 
      ggtgcccca ggatgacgg ggatcagcc aatagtcgc 
      aatcgatta cactgaaca gtttaagga tgtttttga 
      ttatttccg agctgtttt gcaaagcgg ggagaaatc 
      ggaacgggc cctgaacct taccaagga cgctgcggc 
      cctaaatcc ggcgaatta tacagtttg gcagtacag 
      gcgtgaaat tttgaaagc tttgaataa ggatttgaa 
      cgaggagat ggactttat tgagaagat tattgttta 
      taatcagcc gaaaaatta ccaggtttg gcaccacag 
      gaaggtgct agtggagtg gctgcaaga tgcagcaaa 
      ggagaagta cttgactga gaccgtttt agcgaaaga 
      tgcgaaaaa ttaccacgc ctggcaaca caggcagtg 
      gataattaa aacgttcaa tttgtatga tggagagct 
      tgagtacat tgatagtct catttcgga cgatatcag 
      gaacaactc agcttggaa tcaaagata tttcgtagt 
      tatgggcac aaccgggtt tacagaaga agtcttaaa 
      tagagaaat tgactacgc tctgtccaa tattaaagt 
      cgtaacaga gaacgaaag cgcttggaa ttacttaag 
      aggcgtgtt attgcatga taagtgtgg ccttagccg 
      caacaaaaa agtcactga attttgtga ggaattata 
      caactcggg aaacaggtc tccattttt attagccct 
      ccttgttga tatgtgttc agagcaagt ttcccaagg 
      caatgaaga cccacttta caatttgga aagagccaa 
      aaatttgtg taacgaact ttccgaaaa atatgacac 
      cgtcagagc gaaatattg gcagtttat ggccgaaac 
      cattgagaa gaaaagcaa gaaggagga gtcacaagt 
      cgaagcaga aaattaaaa ataaagtcg atgaaaaaa 
      tttctgtga tgtttactt atttttgta tgtgtctta 
      agtgttttc catcgttgt atttctttc taaagcgaa 
      atatgccac cgtgaacgt cctctttct aacgatgta 
      atgtttttt ctttaatta aaacgtcgc aaatgttaa 
      tctttttgt acgtatttt tattacaag gcaatttat 
      tccattgca cattttcga aagccagta attgttaaa 
      taaatgaat aaaaccact
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY