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Gene information
General information
TC006414 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: 8535360..8537360
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
    TC006414
    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_07494

    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: 20.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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
    • >TC006414 RA
      MGDNKEKTM PKYIKFLFG GSAGMAGTL FVQPLDLLK 
      NRMQLAATQ KERATSFQV LQKIISNEG VFALYTGLS 
      AGLLRQATY TTTRLGVYS WLFETFSEE GKPPSFIVK 
      AGLGMMAGV CGAFVGTPA EVSLIRMTA DGRLPAAER 
      RNYKNVFDA LFRITKEEG VLTLWRGAI PTMGRAMVV 
      NAAQLATYS QAKQMLLNT GFFHDGIFL HFCASMISG 
      LVTTAASMP VDIAKTRIQ NMKTINGKP EYSGALDVL 
      VKVVKNEGP FALWKGFTP YYFRLGPHT VLTFIFLEQ 
      MNSAYNKIV LGKSGTGGQ L
    CDS sequence
    • >TC006414 RA
      atgggggac aacaaagag aaaacaatg cccaagtac 
      atcaaattc ttattcggg ggatcagct ggcatggcg 
      ggcaccctt ttcgtccag cccttagac ctgctcaaa 
      aatcgaatg caactagcg gccacacaa aaagagcgg 
      gcgacttcg ttccaagtc ctccagaaa atcatctcc 
      aacgagggg gtttttgcc ctgtatacg ggcctctca 
      gctgggctt ttgcgccaa gcgacttac acaacgacc 
      cgtctgggg gtgtactcg tggcttttc gagactttt 
      tccgaggag gggaagccc ccaagcttc attgtgaag 
      gcggggttg gggatgatg gcaggcgtg tgtggcgcg 
      tttgtggga accccagcc gaagtgtcc ctaattcgg 
      atgaccgca gacggacgt ctcccagcc gccgaaagg 
      cgcaactac aagaacgtg ttcgacgct ctcttcagg 
      ataacaaag gaggaaggg gttttgacc ctttggagg 
      ggcgcaatc cccacaatg gggcgcgct atggtggtt 
      aatgcggcc cagttggcc acgtactcg caagccaag 
      caaatgctc ttaaatacg ggattcttc cacgacggg 
      attttcctt catttctgt gcctctatg atttcgggg 
      ttggtcaca acggccgcc tcgatgcca gtcgatatt 
      gccaaaact aggattcaa aacatgaaa acaatcaat 
      ggtaagccg gagtactcg ggcgccctc gatgtttta 
      gtcaaagtc gtgaagaac gaagggccg ttcgctttg 
      tggaaaggt ttcactccg tactacttc aggttaggg 
      ccgcacacc gtcctcacg tttattttc ttggagcaa 
      atgaattcg gcgtataat aaaatcgtt ttggggaag 
      tcggggacc ggagggcaa ttgtaa
    mRNA sequence
    • >TC006414 RA
      ctgtttacg ttgtgattt tcgtccaat tttgaaaat 
      gttgcgatt catttgaca gtttgattg acctacttc 
      ggcaacccg catagcaaa tctgcataa tgaattgcc 
      tatgttggc acgattgcc ccaccataa aatcgacat 
      aaaagtgct tttctcgta cgaaatgac ctttgcaac 
      ctccacagc cacaaatcg taaataaac gaaacgatt 
      tacatgaaa tacgaacga tcgagtcac tttcttgtg 
      acagtttga cgcgttaaa taccagtga agtccaaat 
      tcgaaatgg gggacaaca aagagaaaa caatgccca 
      agtacatca aattcttat tcgggggat cagctggca 
      tggcgggca cccttttcg tccagccct tagacctgc 
      tcaaaaatc gaatgcaac tagcggcca cacaaaaag 
      agcgggcga cttcgttcc aagtcctcc agaaaatca 
      tctccaacg agggggttt ttgccctgt atacgggcc 
      tctcagctg ggcttttgc gccaagcga cttacacaa 
      cgacccgtc tgggggtgt actcgtggc ttttcgaga 
      ctttttccg aggagggga agcccccaa gcttcattg 
      tgaaggcgg ggttgggga tgatggcag gcgtgtgtg 
      gcgcgtttg tgggaaccc cagccgaag tgtccctaa 
      ttcggatga ccgcagacg gacgtctcc cagccgccg 
      aaaggcgca actacaaga acgtgttcg acgctctct 
      tcaggataa caaaggagg aaggggttt tgacccttt 
      ggaggggcg caatcccca caatggggc gcgctatgg 
      tggttaatg cggcccagt tggccacgt actcgcaag 
      ccaagcaaa tgctcttaa atacgggat tcttccacg 
      acgggattt tccttcatt tctgtgcct ctatgattt 
      cggggttgg tcacaacgg ccgcctcga tgccagtcg 
      atattgcca aaactagga ttcaaaaca tgaaaacaa 
      tcaatggta agccggagt actcgggcg ccctcgatg 
      ttttagtca aagtcgtga agaacgaag ggccgttcg 
      ctttgtgga aaggtttca ctccgtact acttcaggt 
      tagggccgc acaccgtcc tcacgttta ttttcttgg 
      agcaaatga attcggcgt ataataaaa tcgttttgg 
      ggaagtcgg ggaccggag ggcaattgt aacgacaag 
      ggaagtgaa gcaaatgtt acgcttatg ttttttatt 
      aaagtttgt tttatttac atatcgctg aaattttat 
      ttagaataa gttgcacaa aatcatttc attaataag 
      gtgtaggtc agttaagca atgaatttt tctaataaa 
      cggaaacct tggccgtgt ttttgctag tcgtgtgaa 
      agttacggt aagactgat ctgtggaga cattcaata 
      aacacgaat atgacgatt tggttgttt tatttttaa 
      aattaacag gtggtggca cgatgttta ctgatgcac 
      gggattgat cattatata attccggca aatattgac 
      ttatcactt atcaaggga ctgattgga gataacaaa 
      accaataaa acaagtgca aactcaaat taatgtctt 
      tatcagcaa tcacacttc acgtgaaat gctccatct 
      atacgaaag ttaaatatt tttcccctt acatttgca 
      aaaataggc gtttttagt acaaaatca tgttaataa 
      aaaattata ggcacattt tagagtttt gaaagtgta 
      tagtcacat ttttgcaaa ttgcttttt caaaaccag 
      ttgcttttg ttattccaa attcacaaa aaataaata 
      ttttattca aaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY