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Gene information
General information
TC007027 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_007419.2: 11414981..11418843
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
    TC007027
    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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    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01111

    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: 30.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 3
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 abdomen musculature specific subset dorsal broader - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment: Abdominal muscles from anterior midline to posterior dorsal muscle-bundle are clearly broader than in wt. This effect was visible in weaker phenotypes.
    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    dorsal ridge row irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

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

    head not present - Penetrance (percentage of animals/eggs on slide): more than 80%
    thorax pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%
    thorax not present - Penetrance (percentage of animals/eggs on slide): more than 80%
    abdomen pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%
    abdomen not present - 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    Pupal morphology
    antenna shortened - Number of animals showing the phenotype: 9

    antenna orientation irregular - Number of animals showing the phenotype: 9
    wings shortened - Number of animals showing the phenotype: 9

    Adult morphology
    antenna shortened - Number of animals showing the phenotype: 4


    wings not closed - Number of animals showing the phenotype: 4


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007027 RA
      MKYKRFAYL FVGLGVIVV IWKLSVLET SVSNLKTLP 
      QALDLHKDQ LELTQRQLM IFEQIHKKT NYFRNYPVI 
      YAVTPTYWR HVQKAELTR ISQTLQLVP NVHWIVVED 
      SDYKTDLVR NLLTESDLI YTHLNAKTP PFEKLKDKD 
      PRWKRHRGV EQRNTALKW LRENLKLGK DKGVVYFMD 
      DDNTYNVRV FQEMNKIKT VGVWPVGLV GGLNAETPV 
      LDKKTGKVM GYRSGWRPD RPFAIDMAG FAINLDLIL 
      SRTDAVFSY KMEKGYQES EFLSYFTTK EQLEPLADN 
      CTKVYVWHT RTEKPVVNG IVPGLEV
    CDS sequence
    • >TC007027 RA
      atgaaatac aaacggttc gcatatttg ttcgtaggt 
      ttaggtgta attgttgta atttggaag ctgtcagtg 
      ctagagaca agcgttagt aatctaaaa actcttcct 
      caagccctc gacctccat aaagaccag ctcgagtta 
      actcagaga cagttaatg atatttgaa caaatacac 
      aaaaagacc aactatttc cgaaattat ccagtcatc 
      tatgccgta acccccacg tattggagg cacgtacaa 
      aaggccgag ctcactaga atatcacaa acgttgcaa 
      ttagtgcca aatgtgcac tggattgtg gttgaagat 
      tcagattat aaaactgat ctagtgaga aacttgttg 
      actgaatct gacttgatt tatactcat ttgaatgca 
      aaaacgcca ccttttgag aagttgaaa gataaggat 
      ccgagatgg aagcgtcat agaggcgtg gaacaaaga 
      aacaccgct ttgaagtgg ttacgggaa aatttgaag 
      ctcgggaaa gataaagga gttgtgtat tttatggat 
      gatgataac acgtacaac gtcagagtt tttcaagag 
      atgaataaa ataaaaacg gttggggta tggcctgtt 
      ggccttgtt ggaggctta aacgccgag actccagtc 
      ctcgataaa aaaactggg aaagtcatg gggtataga 
      agtggttgg aggcctgat aggcccttt gctatagac 
      atggctggt tttgccata aatctagac ttaatttta 
      tctaggacg gacgctgtg ttttcctat aaaatggaa 
      aaaggttat caagaaagc gagtttctt agttatttt 
      acgaccaaa gagcagttg gagccttta gctgataat 
      tgtactaaa gtttatgtg tggcataca aggacagaa 
      aaaccggtt gtaaatgga atagtgcca ggtttagaa 
      gtttaa
    mRNA sequence
    • >TC007027 RA
      tttgtcaaa ttaaataca aatcaaaaa tccaaagtg 
      ggtgttttt atgttcaag gttggtcat aacaacaat 
      gtcaccgga atcaccgca tctgtcatt ctgtcagcg 
      taaaatcat gtttgaaat ctgctgtgc aatttatcc 
      aagaaaagg ccaaaataa tttgtaatg tggtactta 
      aaatagtgg tagtgcaaa agtaaagac atatggatc 
      gtctgggaa attgtgaaa tgaaataca aacggttcg 
      catatttgt tcgtaggtt taggtgtaa ttgttgtaa 
      tttggaagc tgtcagtgc tagagacaa gcgttagta 
      atctaaaaa ctcttcctc aagccctcg acctccata 
      aagaccagc tcgagttaa ctcagagac agttaatga 
      tatttgaac aaatacaca aaaagacca actatttcc 
      gaaattatc cagtcatct atgccgtaa cccccacgt 
      attggaggc acgtacaaa aggccgagc tcactagaa 
      tatcacaaa cgttgcaat tagtgccaa atgtgcact 
      ggattgtgg ttgaagatt cagattata aaactgatc 
      tagtgagaa acttgttga ctgaatctg acttgattt 
      atactcatt tgaatgcaa aaacgccac cttttgaga 
      agttgaaag ataaggatc cgagatgga agcgtcata 
      gaggcgtgg aacaaagaa acaccgctt tgaagtggt 
      tacgggaaa atttgaagc tcgggaaag ataaaggag 
      ttgtgtatt ttatggatg atgataaca cgtacaacg 
      tcagagttt ttcaagaga tgaataaaa taaaaacgg 
      ttggggtat ggcctgttg gccttgttg gaggcttaa 
      acgccgaga ctccagtcc tcgataaaa aaactggga 
      aagtcatgg ggtatagaa gtggttgga ggcctgata 
      ggccctttg ctatagaca tggctggtt ttgccataa 
      atctagact taattttat ctaggacgg acgctgtgt 
      tttcctata aaatggaaa aaggttatc aagaaagcg 
      agtttctta gttatttta cgaccaaag agcagttgg 
      agcctttag ctgataatt gtactaaag tttatgtgt 
      ggcatacaa ggacagaaa aaccggttg taaatggaa 
      tagtgccag gtttagaag tttaataat ttattacct 
      ctttataca ttttaaacg tttgttttt attttatgc 
      gcagcatcc aacgtaaaa tatacaaat ctgtgatag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY