Status
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Gene information
General information
TC034195 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: 14376194..14380338
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
    TC034195
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02888

    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)

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


    adult lethality - Number of animals showing the phenotype: 1 (11 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): less than 30%
    larval musculature pattern 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
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    larva constricted - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva segment not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    legs partially shortened - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment: in most cases the metathoracic legs are shortened
    abdomen segment number decreased - 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): 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC034195 RA
      MPESLLLPA SYIVMAEAE PDLSTFENK TGLAEDMKF 
      LASMPELCD VTFLVGDTR EPVCAVKAV LAARSRVFH 
      KMLYQAPSP QRKKEPPPR ENKLRLFLK RSSEPLLNL 
      QNASQQPPS QQHQTLIIE EFEPDVFRQ LIEYIHTGC 
      VTLQPRTLL GVMNAADYY GLDELRRAC AGFVQCCIN 
      VDTVCALLA SAERYIQYK CTKSLVQKV LEFVDEHGN 
      EVLNLGSFT LLPQHVVRL ILARDELHA DEFTKFQAA 
      LMWGKKYCD NNPSTSLKD VIGNFLEYI QFHKIPANV 
      LMREIHPLG LVPYNIIMN ALAYQADPA SVDPGKLSP 
      NRVRRQAQG RSMSVQSSL DPYGSNTTL SSSGSSELA 
      SSDGKHSSN
    CDS sequence
    • >TC034195 RA
      atgccggaa agcttgctt ttacccgcg agttacatc 
      gtgatggcg gaagccgaa cccgaccta agcactttt 
      gagaacaag accggattg gccgaagac atgaagttt 
      ctggcctcc atgccggag ctctgcgac gtcaccttc 
      ctggtgggc gacaccagg gagccggtg tgcgctgtg 
      aaggcggtt ttggcagcg aggtccaga gtcttccac 
      aaaatgctc taccaggcc cctagcccc cagcgcaag 
      aaggagcct ccaccacgt gaaaacaaa ctccggttg 
      ttcctcaaa cgctcgtcg gagcctctc ctcaacctc 
      cagaacgct tcccagcag ccgccatct caacagcac 
      cagactctt attatcgaa gagttcgag ccggatgtt 
      ttcagacag ttgattgag tatatccat actggatgt 
      gtgactctt caacctcgc acattattg ggtgtgatg 
      aatgcggcc gattattat ggtctagac gaactacga 
      agagcttgt gcaggtttc gtccaatgc tgcataaac 
      gtggacaca gtgtgtgcc cttttggcc tcagccgag 
      cgctacatc cagtacaaa tgcaccaag tctttggtc 
      cagaaagtt ctagagttt gtggacgaa cacggcaac 
      gaggtcctc aatttgggt tcctttact cttctaccc 
      caacacgtt gtcagactg attttggct agagatgag 
      ctacacgct gacgaattt acaaagttt caagcggca 
      cttatgtgg ggtaaaaaa tattgtgat aacaacccc 
      agcaccagc ctgaaggac gtgataggt aacttctta 
      gagtacatt cagttccat aagataccg gcaaatgtc 
      ctaatgagg gagattcac cccttaggc ttggtgccc 
      tacaacatt ataatgaat gcgctagca tatcaggca 
      gacccggca agtgtcgac cccggaaaa ctgtcaccc 
      aaccgagta agacggcag gcgcaaggc cgttccatg 
      tcggtgcag agctccctg gacccctac ggctccaac 
      accacgttg agcagcagc ggctccagc gagctggcg 
      tcttcagac ggcaagcat tcctccaac taa
    mRNA sequence
    • >TC034195 RA
      gcggcgaaa atgctgcta aaactcgtc gaaaatgtg 
      taagaaaaa ccgcagttt ccgcgcctg aatcatccg 
      ccacaaact tgcaacaca aattcggtt ttaattgtt 
      tcttttagt tcgcggatt ttctcaact ctaacagat 
      gccggaaag cttgctttt acccgcgag ttacatcgt 
      gatggcgga agccgaacc cgacctaag cacttttga 
      gaacaagac cggattggc cgaagacat gaagtttct 
      ggcctccat gccggagct ctgcgacgt caccttcct 
      ggtgggcga caccaggga gccggtgtg cgctgtgaa 
      ggcggtttt ggcagcgag gtccagagt cttccacaa 
      aatgctcta ccaggcccc tagccccca gcgcaagaa 
      ggagcctcc accacgtga aaacaaact ccggttgtt 
      cctcaaacg ctcgtcgga gcctctcct caacctcca 
      gaacgcttc ccagcagcc gccatctca acagcacca 
      gactcttat tatcgaaga gttcgagcc ggatgtttt 
      cagacagtt gattgagta tatccatac tggatgtgt 
      gactcttca acctcgcac attattggg tgtgatgaa 
      tgcggccga ttattatgg tctagacga actacgaag 
      agcttgtgc aggtttcgt ccaatgctg cataaacgt 
      ggacacagt gtgtgccct tttggcctc agccgagcg 
      ctacatcca gtacaaatg caccaagtc tttggtcca 
      gaaagttct agagtttgt ggacgaaca cggcaacga 
      ggtcctcaa tttgggttc ctttactct tctacccca 
      acacgttgt cagactgat tttggctag agatgagct 
      acacgctga cgaatttac aaagtttca agcggcact 
      tatgtgggg taaaaaata ttgtgataa caaccccag 
      caccagcct gaaggacgt gataggtaa cttcttaga 
      gtacattca gttccataa gataccggc aaatgtcct 
      aatgaggga gattcaccc cttaggctt ggtgcccta 
      caacattat aatgaatgc gctagcata tcaggcaga 
      cccggcaag tgtcgaccc cggaaaact gtcacccaa 
      ccgagtaag acggcaggc gcaaggccg ttccatgtc 
      ggtgcagag ctccctgga cccctacgg ctccaacac 
      cacgttgag cagcagcgg ctccagcga gctggcgtc 
      ttcagacgg caagcattc ctccaacta acatacggc 
      cactgtcgc gccacaacc tccacctcc accgcccct 
      gactccctc cccccatca ctaccccca tccgcccac 
      ggtgacggt gtcgtcgtc gtcgccctc ctccacccc 
      ccagtcctc ccccgcgca caccttcac cttcaccat 
      cgtgctcaa gaaggtcac ccccaagga gtgagccgg 
      gcctccggg tttagcaat attttcatg cagatcaac 
      gttcattta atcttgtga tatttcgtc gatttttga 
      tgacaatcc ttgacgcac acactgcat gacgatatt 
      tgttgttga atttatcca tatcaataa tgtttgttg 
      gttattttc gagtaacgt cttacctct cataccttt 
      ggtcaaaaa tttatacca cctgaaata tatacctag 
      atatcctag tgttgaggc gcaacagtg gcttgaatt 
      ctgtcgttt tttatttac gattattta taaggagct 
      tatatgtgt ccaaaaagg tgttgtatt gtaatattt 
      accggagca attcgttgg taattttca gtgaaacaa 
      aataataaa ttcgccaat tgaaaagca atgtaactt 
      tcgtgcaat atttgttta tatatttat ggtggttcc 
      agtttgtaa gtattatta aaatggatt tcgtgtgct 
      tcatttcat ttgattcac tttgtgggt agtttataa 
      cacttgctt gagtcaaat atcactctt tttttttcc 
      attcataga ctatcaaca cttgatttg tatatttta 
      cgaaattaa agaactttg tttaatcgt tcttagatg 
      ttggttata aactggatg ttgttaata atagaagat 
      aaataaaaa aatgtaatg catgttaaa taatacgag 
      taaaacaga ttggaaagg tatctttca aatcgttaa 
      aatgttttg accaaataa tcaactgta tatgtgggc 
      taagatgtt ataaatata tttatttac ttaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY