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Gene information
General information
TC002147 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_007418.3: 20376578..20379255
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
    TC002147
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00335

    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 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
    • >TC002147 RA
      MTETEIVGG LRIGDLVED GAFMELKLN PPPEDHVQE 
      AECTEALQQ YLKLECLDL DKPSYDGEE PFTAIAKDM 
      TNLLQNGKI KKKIIREGY GPTADNLST VKINYNAYV 
      QFEAQPFDS TYARKSPFT FTVGQGEVI YGLDLAVQS 
      MKINEKAQF LIDPELAYR DSGLNRIPP NSVVLFEVE 
      LCEVKETLK NRPEVNERE FKHVYPQCV ALCAKGKDM 
      VRLKDYQGA IKQYTTSAN KLEEAILEN YEEQLKCEE 
      LMVRLYTNL LVCCTHAEI PKRGCIFAQ KIYEMAKNG 
      TFKVSAKVY FNHAKCQRM LGAYKQAER NFQQAKALE 
      PGNEEISKE LAILKKAKE EYNKQQAKF AKALLK
    CDS sequence
    • >TC002147 RA
      atgactgaa actgaaatt gtcggcgga ttacgtatt 
      ggggatttg gtagaagat ggagctttt atggaactc 
      aagctcaac ccgccgcca gaagatcac gtacaagaa 
      gccgaatgt actgaggca cttcaacaa tatttaaaa 
      ctcgaatgt cttgacttg gacaaacct tcatacgat 
      ggagaagaa ccatttaca gcaatcgcc aaagatatg 
      acaaactta ctacaaaat ggaaaaatc aagaaaaaa 
      ataattaga gaagggtac ggcccaaca gcagacaac 
      ttatcaact gtcaaaata aattacaac gcttatgtg 
      caatttgag gcccaacca tttgactcg acctatgcc 
      agaaaatca ccgtttacg ttcacagtt ggccagggg 
      gaagttatt tatgggcta gaccttgcc gtgcaatca 
      atgaaaatt aatgaaaag gcgcaattt ttaattgat 
      cccgaacta gcttataga gacagtggt ttgaacaga 
      attccgcca aattccgtt gttttgttc gaagtggaa 
      ttatgtgaa gttaaagaa actttgaaa aatagaccc 
      gaagttaac gagagggaa ttcaagcat gtgtaccct 
      caatgtgtg gcgctttgt gccaaaggc aaagacatg 
      gttcgccta aaagactac caaggtgca atcaaacaa 
      tacaccaca tctgctaat aaactagaa gaagcaatt 
      ttggagaat tacgaagag cagttaaaa tgtgaagaa 
      ctgatggtt cgtttatac accaatttg ttggtttgt 
      tgcacacat gccgagata cctaaacgc ggctgtatc 
      ttcgcacaa aaaatttac gaaatggcc aaaaatgga 
      acatttaaa gtttcggcc aaagtatat ttcaatcat 
      gccaaatgc caaagaatg ctgggtgct tataaacaa 
      gcagaaagg aattttcaa caagcaaaa gctttggag 
      cccgggaat gaagaaata agtaaagaa ttggcgatt 
      ttgaagaaa gctaaagaa gagtacaac aaacagcaa 
      gcgaaattc gcaaaagca cttcttaaa taa
    mRNA sequence
    • >TC002147 RA
      ctgcatata gttttgtgt cttgctaag agttgattg 
      ttttttggt gttgtaatt tttatgaaa cacaaagtt 
      tgtcgttgt ttatacaca tttacaaac acttttata 
      catactagt ggttaaatc tttttatta agatgactg 
      aaactgaaa ttgtcggcg gattacgta ttggggatt 
      tggtagaag atggagctt ttatggaac tcaagctca 
      acccgccgc cagaagatc acgtacaag aagccgaat 
      gtactgagg cacttcaac aatatttaa aactcgaat 
      gtcttgact tggacaaac cttcatacg atggagaag 
      aaccattta cagcaatcg ccaaagata tgacaaact 
      tactacaaa atggaaaaa tcaagaaaa aaataatta 
      gagaagggt acggcccaa cagcagaca acttatcaa 
      ctgtcaaaa taaattaca acgcttatg tgcaatttg 
      aggcccaac catttgact cgacctatg ccagaaaat 
      caccgttta cgttcacag ttggccagg gggaagtta 
      tttatgggc tagaccttg ccgtgcaat caatgaaaa 
      ttaatgaaa aggcgcaat ttttaattg atcccgaac 
      tagcttata gagacagtg gtttgaaca gaattccgc 
      caaattccg ttgttttgt tcgaagtgg aattatgtg 
      aagttaaag aaactttga aaaatagac ccgaagtta 
      acgagaggg aattcaagc atgtgtacc ctcaatgtg 
      tggcgcttt gtgccaaag gcaaagaca tggttcgcc 
      taaaagact accaaggtg caatcaaac aatacacca 
      catctgcta ataaactag aagaagcaa ttttggaga 
      attacgaag agcagttaa aatgtgaag aactgatgg 
      ttcgtttat acaccaatt tgttggttt gttgcacac 
      atgccgaga tacctaaac gcggctgta tcttcgcac 
      aaaaaattt acgaaatgg ccaaaaatg gaacattta 
      aagtttcgg ccaaagtat atttcaatc atgccaaat 
      gccaaagaa tgctgggtg cttataaac aagcagaaa 
      ggaattttc aacaagcaa aagctttgg agcccggga 
      atgaagaaa taagtaaag aattggcga ttttgaaga 
      aagctaaag aagagtaca acaaacagc aagcgaaat 
      tcgcaaaag cacttctta aataaatta tacaaagtg 
      gtcaagaat gaatgtttt ggttggcta ttgttttac 
      atgacaaat gtttgatga aaacgtagt ctagagtgc 
      gtatatttt gtcaaaatt agataaaaa tttgttaat 
      agtgacaaa aggaatggt tgacaacag aaaggaatg 
      tgattactt tcttagttt gcaaaatgt caaatatac 
      tgtcaagtt cactgacta caagcggaa gtttgtcca 
      gttttttaa gaaatgtca atctgatag tgacgtcac 
      ttaagaatg aaagattgc gaattaaaa cagttgttc 
      ttgatcagc caaatttgt tgaatttct cgtattaat 
      taatatatt tgtaaaata aat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY