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Gene information
General information
TC009626 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_007422.5: 3376946..3379327
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
    TC009626
    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_01585

    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 larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): less than 30%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    head partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment: Head & appendages appear to be missing on one side.
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): less than 30%
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009626 RA
      MFAKFWVFL ALFCLHVQH SHGATDKVI CYVASWAIY 
      RPDKGEYHP KNIDPNICT HINYAFLGV YPNGTLQMI 
      DEWGDIEKG NFAEVEALK EINPNLKTI ISIGGWNAG 
      NAILAPIAA SPELRANLI ASSFEYFEK YGFNGLDID 
      WEYPEAKDK ENFITLLRE IKEAFQPKG HLLTIAVSA 
      IPIDDAYDI PGMSENVDV INLMTYDFH IPGGGIAAE 
      NSPLYWGGA DTPWQREYE NVNSTVVNW VNAGADPGK 
      LTIGLAFYG HTFQLADPA QHDLGAPVI DAGMSGPYT 
      KGYGVMGFN EICEFTGDW TRVFDDQQK VPYKYKDDQ 
      WIGYDDEES VALKVQFAK DHNMAGLMI WTVDMDDFL 
      GLCGPKNGL LEVIKQNL
    CDS sequence
    • >TC009626 RA
      atgtttgcc aagttttgg gtttttttg gctcttttt 
      tgcctccac gtccagcac agccatggt gccacagac 
      aaagtaatt tgctacgtt gccagttgg gcgatttac 
      cgccctgac aagggcgag taccaccca aaaaacatc 
      gacccgaac atatgcacc cacattaac tatgctttc 
      ctgggcgtt taccccaat ggtactctc caaatgatc 
      gacgaatgg ggcgacatt gaaaaagga aatttcgcc 
      gaagtcgaa gctttgaaa gaaatcaat ccaaacttg 
      aaaacaata atcagcata ggaggctgg aacgccgga 
      aacgccatt ttggcgccg atcgccgcc tcaccggaa 
      ctcagagcc aacctgatt gccagctct ttcgagtac 
      ttcgagaaa tacggcttc aacgggctg gacatcgac 
      tgggaatat ccggaggcc aaagacaaa gaaaatttc 
      ataactctc ctccgagag atcaaggag gcgttccag 
      cccaaaggt caccttctg accatcgcc gtgtcggcg 
      attcccatc gacgacgcc tacgacatt cccggcatg 
      tccgagaac gtggacgtc atcaacctc atgacctac 
      gacttccat atacctggg ggcggcatc gctgccgaa 
      aactcgccc ctttattgg ggtggtgcg gacacccca 
      tggcagaga gaatacgaa aacgtcaac tcgacggtg 
      gtcaactgg gtcaatgct ggggcagac ccagggaag 
      cttaccatc gggttggcc ttctacggg cacactttc 
      cagctggct gatccggcc cagcacgac ctgggggcg 
      cctgtcatc gatgcggga atgtcgggg ccctacacc 
      aagggctac ggggtcatg ggtttcaac gagatttgt 
      gaatttacg ggtgattgg acgcgggtg tttgacgac 
      cagcagaag gtgccatat aagtataag gacgaccag 
      tggattggg tatgacgat gaggagtcg gtggctttg 
      aaggttcag tttgccaag gaccataat atggcaggg 
      cttatgatt tggacggtc gatatggac gatttcttg 
      ggcctgtgt gggccgaag aacgggcta cttgaagtg 
      attaagcaa aatttgtaa
    mRNA sequence
    • >TC009626 RA
      gtcaagatc ctagttaaa gcaaacacc aagatgttt 
      gccaagttt tgggttttt ttggctctt ttttgcctc 
      cacgtccag cacagccat ggtgccaca gacaaagta 
      atttgctac gttgccagt tgggcgatt taccgccct 
      gacaagggc gagtaccac ccaaaaaac atcgacccg 
      aacatatgc acccacatt aactatgct ttcctgggc 
      gtttacccc aatggtact ctccaaatg atcgacgaa 
      tggggcgac attgaaaaa ggaaatttc gccgaagtc 
      gaagctttg aaagaaatc aatccaaac ttgaaaaca 
      ataatcagc ataggaggc tggaacgcc ggaaacgcc 
      attttggcg ccgatcgcc gcctcaccg gaactcaga 
      gccaacctg attgccagc tctttcgag tacttcgag 
      aaatacggc ttcaacggg ctggacatc gactgggaa 
      tatccggag gccaaagac aaagaaaat ttcataact 
      ctcctccga gagatcaag gaggcgttc cagcccaaa 
      ggtcacctt ctgaccatc gccgtgtcg gcgattccc 
      atcgacgac gcctacgac attcccggc atgtccgag 
      aacgtggac gtcatcaac ctcatgacc tacgacttc 
      catatacct gggggcggc atcgctgcc gaaaactcg 
      cccctttat tggggtggt gcggacacc ccatggcag 
      agagaatac gaaaacgtc aactcgacg gtggtcaac 
      tgggtcaat gctggggca gacccaggg aagcttacc 
      atcgggttg gccttctac gggcacact ttccagctg 
      gctgatccg gcccagcac gacctgggg gcgcctgtc 
      atcgatgcg ggaatgtcg gggccctac accaagggc 
      tacggggtc atgggtttc aacgagatt tgtgaattt 
      acgggtgat tggacgcgg gtgtttgac gaccagcag 
      aaggtgcca tataagtat aaggacgac cagtggatt 
      gggtatgac gatgaggag tcggtggct ttgaaggtt 
      cagtttgcc aaggaccat aatatggca gggcttatg 
      atttggacg gtcgatatg gacgatttc ttgggcctg 
      tgtgggccg aagaacggg ctacttgaa gtgattaag 
      caaaatttg taataagtt aattacttt tttcaaaga 
      ataaattac tttagattt t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY