Status
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Gene information
General information
TC014088 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_007420.3: 5548010..5549574
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
    TC014088
    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
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    Name
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    Email
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_10002

    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)

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


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


    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%
    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
    • >TC014088 RA
      MPTREILSC TQILFFMVL TSFMIHHML RVNIAIAIV 
      EMVVKPNTT TPTEENFGP KYAWNEREK NDLFAWFFW 
      GFLITQIPG GRFSEIVGS RIVLGLGIL VASVATLLL 
      PLCCNVHYY LVVASRFCV GLGLGVHWP AIPPIAIRW 
      SSSATARTM FMTHLFAGS LGAAIVLPV SGHLIAYVG 
      WPSVFYVTG GMGVLWSVM WFYLIYDSP GQHPRISAK 
      EKEILEQKI RNEITPQVR HIPWIKIFT SLPVWAIVV 
      ANASICFGF YIIFNHLPT YMSSVHNVE IEKNGWISS 
      LPHLGRYIT TVAVSYLGA RMLHKNKFS TLTIRKFLS 
      VVCSWSAVL LFGMEALFG YHYYVTNFV SITFFLFLS 
      LSIPGMIVN ILDISPAFS GTIIGFNQV IVCLSGITS 
      AKVVAFFTA TKQSFEQWR YVFIIVAIV NFVGGLFFL 
      IFASADVQS WNPKENVSQ KKNTLLNDT TSKDHEEF
    CDS sequence
    • >TC014088 RA
      atgccaact cgggaaatc ttgtcatgc actcaaatt 
      ttattcttc atggtacta acaagtttc atgattcat 
      cacatgtta cgagtaaac atcgcgata gcaatagtc 
      gagatggta gtcaagccc aacacaacc accccaact 
      gaagaaaat tttggccca aaatatgca tggaatgag 
      cgtgaaaaa aacgatttg ttcgcatgg ttcttttgg 
      ggtttctta attactcaa atccctggt ggacgcttt 
      tcggaaata gtcggttcc agaattgtt ttaggtctt 
      ggaattcta gtagcaagt gttgcaact ctacttctt 
      cctttgtgt tgcaacgtc cattactac ctagttgta 
      gcgtcaaga ttttgtgtg gggctgggg ttaggggtg 
      cactggccg gctatacca cctattgca atcagatgg 
      tcctcttct gcaacagca aggaccatg ttcatgacc 
      catttattt gctggttct ttaggagct gcgatagta 
      ttgcccgtt tctggtcat ttgatagct tatgtaggg 
      tggccgagt gtgttttac gtcactggg ggtatggga 
      gtcttatgg tcagtaatg tggttttat ttgatttat 
      gactctccc ggacaacat cctcgaata agcgcgaaa 
      gagaaagaa attttggaa caaaaaatc cgcaatgaa 
      ataactcca caagtacga catatacca tggattaaa 
      atttttacg tctttgcca gtgtgggca attgtggta 
      gctaacgct tctatttgt tttgggttt tacattata 
      tttaatcat ttgccaacg tacatgagt tctgtgcac 
      aatgttgaa attgaaaaa aacgggtgg atttccagt 
      ttacctcac ttgggaagg tacattaca acagtagca 
      gtttcatat ctgggagca cgaatgtta cataagaac 
      aaattctcg acacttaca atcagaaaa tttctgagc 
      gtggtgtgt tcctggagt gctgtgcta ttatttgga 
      atggaagct ttattcggt tatcattac tacgttaca 
      aattttgtt tccattact ttctttctt ttcttgagc 
      ctttctatt cccggaatg attgtgaat atcttagac 
      atttcgcct gcattttcc ggtaccatt atagggttt 
      aatcaagtt attgtttgt ttgtcgggc attacttct 
      gcaaaagtt gttgctttc tttacagcg acaaaacaa 
      tcttttgaa cagtggaga tatgttttt ataattgtg 
      gcaatagtt aattttgta ggaggttta tttttctta 
      atttttgca tctgctgat gtgcaaagt tggaaccca 
      aaagaaaat gtgtcccaa aagaaaaat acactatta 
      aatgacaca acttcaaaa gaccatgaa gaattttaa
    mRNA sequence
    • >TC014088 RA
      agttagtca aaatgccaa ctcgggaaa tcttgtcat 
      gcactcaaa ttttattct tcatggtac taacaagtt 
      tcatgattc atcacatgt tacgagtaa acatcgcga 
      tagcaatag tcgagatgg tagtcaagc ccaacacaa 
      ccaccccaa ctgaagaaa attttggcc caaaatatg 
      catggaatg agcgtgaaa aaaacgatt tgttcgcat 
      ggttctttt ggggtttct taattactc aaatccctg 
      gtggacgct tttcggaaa tagtcggtt ccagaattg 
      ttttaggtc ttggaattc tagtagcaa gtgttgcaa 
      ctctacttc ttcctttgt gttgcaacg tccattact 
      acctagttg tagcgtcaa gattttgtg tggggctgg 
      ggttagggg tgcactggc cggctatac cacctattg 
      caatcagat ggtcctctt ctgcaacag caaggacca 
      tgttcatga cccatttat ttgctggtt ctttaggag 
      ctgcgatag tattgcccg tttctggtc atttgatag 
      cttatgtag ggtggccga gtgtgtttt acgtcactg 
      ggggtatgg gagtcttat ggtcagtaa tgtggtttt 
      atttgattt atgactctc ccggacaac atcctcgaa 
      taagcgcga aagagaaag aaattttgg aacaaaaaa 
      tccgcaatg aaataactc cacaagtac gacatatac 
      catggatta aaattttta cgtctttgc cagtgtggg 
      caattgtgg tagctaacg cttctattt gttttgggt 
      tttacatta tatttaatc atttgccaa cgtacatga 
      gttctgtgc acaatgttg aaattgaaa aaaacgggt 
      ggatttcca gtttacctc acttgggaa ggtacatta 
      caacagtag cagtttcat atctgggag cacgaatgt 
      tacataaga acaaattct cgacactta caatcagaa 
      aatttctga gcgtggtgt gttcctgga gtgctgtgc 
      tattatttg gaatggaag ctttattcg gttatcatt 
      actacgtta caaattttg tttccatta ctttctttc 
      ttttcttga gcctttcta ttcccggaa tgattgtga 
      atatcttag acatttcgc ctgcatttt ccggtacca 
      ttatagggt ttaatcaag ttattgttt gtttgtcgg 
      gcattactt ctgcaaaag ttgttgctt tctttacag 
      cgacaaaac aatcttttg aacagtgga gatatgttt 
      ttataattg tggcaatag ttaattttg taggaggtt 
      tatttttct taatttttg catctgctg atgtgcaaa 
      gttggaacc caaaagaaa atgtgtccc aaaagaaaa 
      atacactat taaatgaca caacttcaa aagaccatg 
      aagaatttt aatgtttat tttgtgtag attttgttt 
      accaataaa tattttttt tatat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY