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Gene information
General information
TC005356 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_007423.3: 14113361..14114898
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
    TC005356
    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_09419

    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: 10.0% (includes death as pupa, adult)

    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 - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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
    • >TC005356 RA
      MEPNRLHLL SEDEMASSK DWRKALRSQ PAYRIVNRT 
      IRGQTQFIS IVAFIGLFV LILLYMFPR KGATSGSVL 
      RSSTYNYTY PLTSPIKTS SMHTFRIGV IADLDTNSK 
      SETEKNVWF SYFMKGYLS YSPTRRTVV VTWDRTSPV 
      KLTTSYSLK GRGMELSEL VVFDGRLLT FEDRTGLVY 
      EIINDKAVP WLLLMDGDG RTTKGFKSE WATVKDEIL 
      YVGSMGKEW TTPSGAFET NNPMYVKAI TPKGQVSHL 
      SWVNEYKRI REVLGIYWP GYMIHESGV WSDVHRRWF 
      FLPRRCSKE QYNESLDEH RGCSVLISA DEDLYDVKK 
      TQILNSKPT RGFSSFKFL PSSEDQVIV ALRSEEVDG 
      KTATYITSF TIRGEVLLD DLHIADLKY EGLEFI
    CDS sequence
    • >TC005356 RA
      atggaacca aaccgcttg cacctgtta tccgaggac 
      gaaatggcc agttccaag gactggaga aaggcctta 
      aggtcgcag cccgcttac cgcatagtc aatcggacc 
      atacgtggc caaacccag ttcatttca atcgtggcc 
      tttatcggc ctttttgtg ttaatcctc ctgtacatg 
      tttccccgt aagggggcc acatctggt agcgttctc 
      aggagtagt acttacaac tacacgtac cctctaact 
      agtccaatt aaaaccagt tcaatgcat acgttccgg 
      ataggtgtt attgccgat ctggacacg aattcgaag 
      agtgaaacg gagaagaat gtgtggttt tcgtatttt 
      atgaagggc tatctgagc tatagtcct acgagacgg 
      acggttgtg gttacgtgg gaccgcaca agtccggtc 
      aagttaact acgagttat tcgttgaaa gggagaggg 
      atggagttg tccgagttg gtggttttt gacggcaga 
      ttgctcact tttgaagac agaactgga cttgtgtac 
      gaaattatt aatgataaa gcagttccg tggctgctt 
      cttatggac ggggacggg agaaccaca aagggcttt 
      aagtcggaa tgggcgacc gtaaaagac gaaatttta 
      tacgtaggg tccatgggg aaggaatgg acgacccct 
      agcggggcc tttgaaaca aacaatccc atgtatgtg 
      aaggccata acacccaaa ggccaagtc agccaccta 
      agctgggtg aacgaatat aagcgaatt cgggaagtt 
      ctgggcatt tattggccc ggttatatg atccatgag 
      agcggggtt tggtctgac gtccacaga cgttggttc 
      tttttgcct cgaaggtgc agcaaagag caatacaac 
      gaatcattg gacgaacat agaggttgt tcggtgttg 
      ataagtgcc gatgaggat ctctacgat gttaaaaaa 
      acacaaatt ttgaattcg aaaccaacg agaggtttt 
      tcgagtttc aagttcctg ccatcgtcc gaagatcaa 
      gtcattgtg gcgttacga agcgaggaa gttgatggt 
      aaaacagcg acctacatt accagcttt acgattcga 
      ggggaagtc ctccttgac gatctccac atagctgat 
      ttaaaatac gagggattg gagtttatt tag
    mRNA sequence
    • >TC005356 RA
      tcaaaactt aggttaagt agagtttga aatttagga 
      ttatttttt gtgataatg atacgtgta agctggccc 
      agtccaacg tgatagtta attgatgga accaaaccg 
      cttgcacct gttatccga ggacgaaat ggccagttc 
      caaggactg gagaaaggc cttaaggtc gcagcccgc 
      ttaccgcat agtcaatcg gaccatacg tggccaaac 
      ccagttcat ttcaatcgt ggcctttat cggcctttt 
      tgtgttaat cctcctgta catgtttcc ccgtaaggg 
      ggccacatc tggtagcgt tctcaggag tagtactta 
      caactacac gtaccctct aactagtcc aattaaaac 
      cagttcaat gcatacgtt ccggatagg tgttattgc 
      cgatctgga cacgaattc gaagagtga aacggagaa 
      gaatgtgtg gttttcgta ttttatgaa gggctatct 
      gagctatag tcctacgag acggacggt tgtggttac 
      gtgggaccg cacaagtcc ggtcaagtt aactacgag 
      ttattcgtt gaaagggag agggatgga gttgtccga 
      gttggtggt ttttgacgg cagattgct cacttttga 
      agacagaac tggacttgt gtacgaaat tattaatga 
      taaagcagt tccgtggct gcttcttat ggacgggga 
      cgggagaac cacaaaggg ctttaagtc ggaatgggc 
      gaccgtaaa agacgaaat tttatacgt agggtccat 
      ggggaagga atggacgac ccctagcgg ggcctttga 
      aacaaacaa tcccatgta tgtgaaggc cataacacc 
      caaaggcca agtcagcca cctaagctg ggtgaacga 
      atataagcg aattcggga agttctggg catttattg 
      gcccggtta tatgatcca tgagagcgg ggtttggtc 
      tgacgtcca cagacgttg gttcttttt gcctcgaag 
      gtgcagcaa agagcaata caacgaatc attggacga 
      acatagagg ttgttcggt gttgataag tgccgatga 
      ggatctcta cgatgttaa aaaaacaca aattttgaa 
      ttcgaaacc aacgagagg tttttcgag tttcaagtt 
      cctgccatc gtccgaaga tcaagtcat tgtggcgtt 
      acgaagcga ggaagttga tggtaaaac agcgaccta 
      cattaccag ctttacgat tcgagggga agtcctcct 
      tgacgatct ccacatagc tgatttaaa atacgaggg 
      attggagtt tatttagca ttcccgcaa ttttgtaaa 
      atattgtac attgtgtat taatttaaa taaaaaatt 
      gtaaatacg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY