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Gene information
General information
TC030749 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_007421.3: 4397799..4401645
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
    TC030749
    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_06061

    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: 40.0% (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: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature thinner - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature sometimes partiallynot present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature sometimes partiallyshortened - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    leg musculature thinner - 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): more than 80%
    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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030749 RA
      MLNTNEMIY DPPPVAHLS QAELMEKFN LAFYEGQNM 
      KTFEEPEIK DDYLIDYLI SNAPESDFD LNEFVQTFD 
      ENLSRTEST ISETFSDIF GPPSMDLDD IDLDFQDLD 
      LLPPVNSFG TYLRNLPED SLIETNEDT RAEFGHLIG 
      APIEEPLPE NQIILNQDE ALLQDAVTT TLQCQWENC 
      YQIYDHQTA LVKHIEKCH VEVKRGEEF ACFWANCPR 
      KIKPFNARY KLLIHMRVH SGEKPNKCP FEGCNKAFS 
      RLENLKIHQ RSHTGERPY LCQFPTCTK SFSNSSDRA 
      KHQRTHFDT KPYACQVVG CTKKYTDPS SLRKHVKNH 
      TSEEQMLVK KKGQDECFD SSYVRKFFD PNRQKAVKI 
      SDKNQLYTD HNYSSEERK YDSVNIRQD LKNKISEKR 
      LRKLY
    CDS sequence
    • >TC030749 RA
      atgttaaac acaaacgaa atgatctac gacccacct 
      ccagtggct cacctgagc caagccgaa ctaatggaa 
      aaattcaat ctcgcattt tacgaaggc cagaacatg 
      aaaactttc gaagaaccc gaaatcaaa gacgactat 
      ctcatcgac tacttgatt tcaaacgca cccgaaagc 
      gactttgac ttgaacgaa ttcgtgcaa actttcgac 
      gagaatcta tcacgcacc gaaagcaca atctcggaa 
      acattctcc gatattttt gggcctccc agtatggac 
      ttggacgat attgacttg gattttcaa gacttggat 
      cttctgcct cctgttaac tccttcggg acgtacctt 
      cggaacctc cccgaggac agtttaatt gaaacaaat 
      gaagacaca agggccgaa ttcgggcac ttgattggg 
      gccccaatc gaggaaccc cttcccgaa aaccaaatt 
      atcctgaac caggacgaa gcgctcctt caggacgct 
      gtgaccaca accctgcaa tgccaatgg gagaactgc 
      taccagatc tacgaccat cagaccgct ctggtcaag 
      cacatcgaa aagtgtcac gttgaagta aaacgcggg 
      gaggaattt gcctgtttt tgggcgaac tgtccgcga 
      aaaatcaag ccgtttaac gccagatac aagctcctg 
      atccatatg agagtacac agtggcgaa aaaccgaac 
      aaatgcccg ttcgagggt tgtaataag gcattttca 
      cgcttggaa aatttgaaa atacaccaa aggagtcac 
      acgggggaa aggccctac ctgtgccaa tttcccacc 
      tgtaccaag agcttttcc aacagttcg gacagagcc 
      aagcaccaa agaacacac tttgataca aaaccatac 
      gcgtgtcaa gtggtcggt tgcacaaaa aaatacacc 
      gacccgagc agtctgcga aaacacgtc aagaaccac 
      acaagtgaa gaacaaatg ttggtgaag aagaagggt 
      caagatgag tgctttgat tcgagttat gtgcgaaaa 
      ttcttcgat ccgaatcgg caaaaagca gtcaaaata 
      agcgacaaa aaccaactt tacactgac cataattat 
      tcgtccgaa gaacgaaaa tacgattcg gtcaatatt 
      aggcaagac ttgaagaac aagatctcc gaaaaacgc 
      ttgcggaag ttgtactga
    mRNA sequence
    • >TC030749 RA
      cgagcgcgc gtcatttca accctgaca tgtaacagt 
      aagtacaat catcaacac ttatctcaa tttctacca 
      cacctccaa ttccagatg ttaaacaca aacgaaatg 
      atctacgac ccacctcca gtggctcac ctgagccaa 
      gccgaacta atggaaaaa ttcaatctc gcattttac 
      gaaggccag aacatgaaa actttcgaa gaacccgaa 
      atcaaagac gactatctc atcgactac ttgatttca 
      aacgcaccc gaaagcgac tttgacttg aacgaattc 
      gtgcaaact ttcgacgag aatctatca cgcaccgaa 
      agcacaatc tcggaaaca ttctccgat atttttggg 
      cctcccagt atggacttg gacgatatt gacttggat 
      tttcaagac ttggatctt ctgcctcct gttaactcc 
      ttcgggacg taccttcgg aacctcccc gaggacagt 
      ttaattgaa acaaatgaa gacacaagg gccgaattc 
      gggcacttg attggggcc ccaatcgag gaacccctt 
      cccgaaaac caaattatc ctgaaccag gacgaagcg 
      ctccttcag gacgctgtg accacaacc ctgcaatgc 
      caatgggag aactgctac cagatctac gaccatcag 
      accgctctg gtcaagcac atcgaaaag tgtcacgtt 
      gaagtaaaa cgcggggag gaatttgcc tgtttttgg 
      gcgaactgt ccgcgaaaa atcaagccg tttaacgcc 
      agatacaag ctcctgatc catatgaga gtacacagt 
      ggcgaaaaa ccgaacaaa tgcccgttc gagggttgt 
      aataaggca ttttcacgc ttggaaaat ttgaaaata 
      caccaaagg agtcacacg ggggaaagg ccctacctg 
      tgccaattt cccacctgt accaagagc ttttccaac 
      agttcggac agagccaag caccaaaga acacacttt 
      gatacaaaa ccatacgcg tgtcaagtg gtcggttgc 
      acaaaaaaa tacaccgac ccgagcagt ctgcgaaaa 
      cacgtcaag aaccacaca agtgaagaa caaatgttg 
      gtgaagaag aagggtcaa gatgagtgc tttgattcg 
      agttatgtg cgaaaattc ttcgatccg aatcggcaa 
      aaagcagtc aaaataagc gacaaaaac caactttac 
      actgaccat aattattcg tccgaagaa cgaaaatac 
      gattcggtc aatattagg caagacttg aagaacaag 
      atctccgaa aaacgcttg cggaagttg tactgaagc 
      attgtgata gaattttgt tattatatt tttgtattt 
      ttttctatt aaaatttta taaatatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY