Status
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Gene information
General information
TC013041 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: 14777527..14780305
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
    TC013041
    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_10129

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - 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
    • >TC013041 RA
      MEQRLSNFR SLFKSSPAP ESDPSEPEI GFKLTFSKT 
      SKQLKVKVL SARHLPVNY GAIKPHGYL VKITVFPEK 
      EKYETSVVK ESWPTFNEE FPFTLHSAS RYYQDYFKG 
      KFISFTVYA VLENTTETV ARKNQTSRL KRFFSFSEF 
      GETPNRFRR SFRHSLNSR RTIGAVTYN LDAKIFNQK 
      LGDDLIYTP DIWRGIKEI TSGIQTEPR EGKNGSLEM 
      TLSYNISED RKNDVVEIS VTKFRCSLQ TMQKHEKLG 
      GQLYIKITA SEQADVVQK MKSDKFEPT ISLKLEANT 
      ATLRATVNN DNLEQVRIL VRLICRNIL GKKIVLGKV 
      EIDSNSDLW KEIVKTPSV PITRMINLE
    CDS sequence
    • >TC013041 RA
      atggaacag agactaagc aactttcgg agtctcttt 
      aaatcgtct ccagcccct gaaagcgac cccagcgag 
      cccgaaatc ggcttcaaa ctgactttt tccaaaacg 
      tccaaacag ctaaaagtc aaagtgttg agtgcgaga 
      cacctccca gtgaattac ggtgcgatt aaaccgcat 
      ggatactta gtcaagatc acagttttc ccggaaaag 
      gaaaaatat gaaacgtca gttgtgaag gaatcgtgg 
      ccgactttc aacgaggag tttcccttt acgctgcat 
      tcggcgtcc aggtactac caggattat ttcaagggg 
      aagtttatt tccttcacc gtttatgcg gttttggag 
      aatacaact gaaacagtg gctaggaaa aatcaaacc 
      agtcgcttg aaacggttt ttctcattt agcgagttc 
      ggggaaacc ccgaatagg ttcaggagg agctttagg 
      cattcgctg aatagtcgc aggactatt ggagcggtt 
      acttataat ctggacgcg aaaattttt aaccagaag 
      ctgggagat gatcttatt tacactccg gatatttgg 
      agagggatc aaagagatt accagcggg atccaaaca 
      gaaccgcgc gagggcaaa aacggcagc ttggaaatg 
      accctctcg tacaacatc agcgaggac cgcaagaac 
      gacgtggtg gagatcagc gtgacgaag ttccggtgc 
      agcttacaa acgatgcaa aagcacgaa aagctcgga 
      ggccagctg tacatcaaa atcacggct tcggagcaa 
      gccgacgtc gtacagaaa atgaagagt gacaaattc 
      gagccgacg atttcgctc aaactggaa gccaacacg 
      gccacactt cgggccaca gtcaacaac gacaacttg 
      gagcaagtc aggattctg gtgcggctc atttgtagg 
      aacattctg ggcaagaaa atcgttctg gggaaggtt 
      gaaatcgac agcaatagc gacttgtgg aaggagatt 
      gtgaaaact ccgtctgtg cccataaca cggatgatc 
      aacttggag tga
    mRNA sequence
    • >TC013041 RA
      cctccaaac tgataaggt aaaacagta cacggttaa 
      ttcaattaa cggctgtgt taacaaatg cgcgggttc 
      aattgtgtc cttttcaat tactcggcc taaattgtt 
      tacgattgt gcacttgtt aacgctcgc catcatgtg 
      gttagcatt ccatcagtg agcgcccga aaatggaac 
      agagactaa gcaactttc ggagtctct ttaaatcgt 
      ctccagccc ctgaaagcg accccagcg agcccgaaa 
      tcggcttca aactgactt tttccaaaa cgtccaaac 
      agctaaaag tcaaagtgt tgagtgcga gacacctcc 
      cagtgaatt acggtgcga ttaaaccgc atggatact 
      tagtcaaga tcacagttt tcccggaaa aggaaaaat 
      atgaaacgt cagttgtga aggaatcgt ggccgactt 
      tcaacgagg agtttccct ttacgctgc attcggcgt 
      ccaggtact accaggatt atttcaagg ggaagttta 
      tttccttca ccgtttatg cggttttgg agaatacaa 
      ctgaaacag tggctagga aaaatcaaa ccagtcgct 
      tgaaacggt ttttctcat ttagcgagt tcggggaaa 
      ccccgaata ggttcagga ggagcttta ggcattcgc 
      tgaatagtc gcaggacta ttggagcgg ttacttata 
      atctggacg cgaaaattt ttaaccaga agctgggag 
      atgatctta tttacactc cggatattt ggagaggga 
      tcaaagaga ttaccagcg ggatccaaa cagaaccgc 
      gcgagggca aaaacggca gcttggaaa tgaccctct 
      cgtacaaca tcagcgagg accgcaaga acgacgtgg 
      tggagatca gcgtgacga agttccggt gcagcttac 
      aaacgatgc aaaagcacg aaaagctcg gaggccagc 
      tgtacatca aaatcacgg cttcggagc aagccgacg 
      tcgtacaga aaatgaaga gtgacaaat tcgagccga 
      cgatttcgc tcaaactgg aagccaaca cggccacac 
      ttcgggcca cagtcaaca acgacaact tggagcaag 
      tcaggattc tggtgcggc tcatttgta ggaacattc 
      tgggcaaga aaatcgttc tggggaagg ttgaaatcg 
      acagcaata gcgacttgt ggaaggaga ttgtgaaaa 
      ctccgtctg tgcccataa cacggatga tcaacttgg 
      agtgatttt gtacttagg gaaagcgaa ccgaaaaga 
      ctgtacgtg gtgccaatg tcggattat ttattgtaa 
      tttatactc aataaaaat tttgaatta tg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY