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Gene information
General information
TC016312 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: 940603..949877
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
    TC016312
    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
    {{ goGene }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    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_05997

    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)

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


    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
    • >TC016312 RA
      MTNWIFLLS TLAVVNCRP QNTQETPAV EIEKQHVIE 
      ITPRQLYET NDQKELDES TKEILEKIA LVNEKQGLN 
      KKKPRPHYQ HFPFSYLRS QESRQGDDF KFPRDPFTN 
      PILDYVEGK QKEPAADKR TPITTQFSD EESEESEVP 
      PGQYIKRKV IHQQTMIVP GASFMPGGF NPPPPPPPQ 
      ASIPQSFYA MNQNVKKSE LEAQTVNNV RNIVGNSQY 
      LYNPYLQQY NPYLYQQIQ PTGRQGQWP PQWPFAQYF 
      PIIIKDPLM HMFNAMTTM IEYGPQAGQ GGNKCKHLE 
      KKSREITTK PKLSYNVVD NGKGAEIYV SNEDDSNMT 
      TVLEIEDLQ IRDKPNLNL RRESKQNQE IKKTFFYNT 
      TDPLSNPLI QTLQITKSE INSNDTSRQ SPPIRDQEL 
      GEDEIELEE LDKAEDVQV SHDGNKKLF SKDNTGSGI 
      FVHKIKVRK GGVAIAGPG GIATAGSGG TAIVGPNGF 
      AYTHPDSLA IAGSGTKVV AVEPTINLA TVVNDHKNK 
      TRGQGHAAP SRLGKVVAV GPVIYYNKG YIIFPHGLR 
      YPRWPPASQ SQTTIPSNP QINVLQTNI QNSKFVKVS 
      PKEEIKVNE LSKDGNNNT IAPYKAHPL FHFLKNRNT 
      INTDRIISF RNDLSNSEK ITTLILKPM AKAVAGIEG 
      QAIANPLSR AILRQGMNV DILFEPDAV AIAGPGGIA 
      HAQSDLEIS YEDFPETKN F
    CDS sequence
    • >TC016312 RA
      atgaccaat tggattttt ctcttatca acattggct 
      gtggttaac tgtaggccc caaaatacc caagaaaca 
      ccagcagta gagattgaa aaacaacac gtaatagaa 
      atcacaccg cgccaactg tacgaaaca aatgatcag 
      aaagaacta gacgaaagt acgaaagaa atccttgag 
      aaaatagca ctagtcaat gaaaaacag ggattaaat 
      aagaaaaaa ccccgacca cactatcaa cacttcccg 
      ttcagttat ttaagatcg caggagtcc agacaagga 
      gatgatttt aaattcccg agggatcca ttcacgaac 
      ccgatcctg gactacgtc gaaggcaaa caaaaggaa 
      ccagcagca gacaaacgg actccaatc accacacaa 
      ttcagtgat gaggaaagt gaggaaagt gaggtacca 
      cctggccag tacatcaaa cgtaaagta atccaccaa 
      caaacaatg atcgtacca ggagctagt ttcatgccg 
      gggggtttc aacccaccc ccacctcca cccccacaa 
      gcaagcatc ccccagtcg ttttatgcc atgaatcaa 
      aacgtgaaa aaaagcgaa ctggaggca caaactgtt 
      aacaatgtt agaaatatt gttggaaat tcgcaatac 
      ttgtacaat ccatacttg caacaatat aacccgtat 
      ctctaccag caaatacaa cccactgga cgtcaaggg 
      caatggccc ccacaatgg ccctttgcc cagtacttc 
      ccgatcata ataaaggac cccctcatg catatgttc 
      aatgctatg accacaatg atcgagtat gggcctcag 
      gcgggtcaa gggggcaat aagtgcaaa catttagaa 
      aaaaaatca cgagaaatc acaacgaag cccaaattg 
      agctacaat gtcgtggat aatggaaaa ggggccgaa 
      atatatgtc tcaaacgaa gacgattca aacatgacc 
      acagtcctc gaaattgaa gatttgcaa ataagggac 
      aaaccaaat ttaaacttg cggcgagaa tcgaagcaa 
      aatcaggaa atcaagaaa acatttttc tacaatacg 
      actgatccc ttgtccaat cccctgatc cagacttta 
      caaatcacc aaaagcgaa atcaattcc aatgatacc 
      tcccgacag tcgcctccg attcgtgac caggagcta 
      ggtgaagac gaaatagag ctggaggag ttggataag 
      gcggaagac gtgcaagtg tcacacgat ggaaacaag 
      aaactcttc agtaaggat aacaccgga agtgggatt 
      tttgtccat aaaatcaaa gtcaggaaa ggtggagtg 
      gccatcgca ggacctgga ggtatcgca accgctggc 
      agtggtggc actgcgatt gttggaccc aatggattt 
      gcttataca cacccagat agtctcgca attgcgggt 
      tcagggact aaagtggtg gctgtggaa ccgacgatt 
      aatcttgcg acggttgtt aatgaccat aagaataag 
      acgaggggg caagggcat gcagcaccg tcaaggttg 
      gggaaagtt gtggcggtg gggccggtt atttattat 
      aataaagga tacataatt ttccctcat ggacttcgt 
      tacccacgt tggcctcct gcatcccaa agtcaaact 
      accattcct tcaaaccca caaatcaat gttcttcaa 
      actaacata caaaacagt aaattcgtg aaagtgtca 
      ccaaaagaa gaaatcaaa gtaaatgaa ttatccaaa 
      gatggaaat aacaacacg atagcacca tataaagct 
      catcctttg tttcacttt ttaaaaaat cgcaatact 
      attaatact gacaggatt atcagtttt cgtaacgat 
      ttgtcaaat tctgaaaaa atcacaact ctgatttta 
      aaaccgatg gctaaagct gttgctggt attgaaggg 
      caagcaatc gctaaccct ttatctagg gctattttg 
      aggcaaggg atgaatgtt gatattttg tttgaacct 
      gacgccgtt gccattgca ggccctggg ggcatagcc 
      catgctcaa agtgattta gagattagt tatgaagat 
      tttccagaa accaaaaat ttctag
    mRNA sequence
    • >TC016312 RA
      tgcaaggaa atattgtga agacagttc gacaaatga 
      ctatctagt gcgataacc aattttcga aatgaccaa 
      ttggatttt tctcttatc aacattggc tgtggttaa 
      ctgtaggcc ccaaaatac ccaagaaac accagcagt 
      agagattga aaaacaaca cgtaataga aatcacacc 
      gcgccaact gtacgaaac aaatgatca gaaagaact 
      agacgaaag tacgaaaga aatccttga gaaaatagc 
      actagtcaa tgaaaaaca gggattaaa taagaaaaa 
      accccgacc acactatca acacttccc gttcagtta 
      tttaagatc gcaggagtc cagacaagg agatgattt 
      taaattccc gagggatcc attcacgaa cccgatcct 
      ggactacgt cgaaggcaa acaaaagga accagcagc 
      agacaaacg gactccaat caccacaca attcagtga 
      tgaggaaag tgaggaaag tgaggtacc acctggcca 
      gtacatcaa acgtaaagt aatccacca acaaacaat 
      gatcgtacc aggagctag tttcatgcc ggggggttt 
      caacccacc cccacctcc acccccaca agcaagcat 
      cccccagtc gttttatgc catgaatca aaacgtgaa 
      aaaaagcga actggaggc acaaactgt taacaatgt 
      tagaaatat tgttggaaa ttcgcaata cttgtacaa 
      tccatactt gcaacaata taacccgta tctctacca 
      gcaaataca acccactgg acgtcaagg gcaatggcc 
      cccacaatg gccctttgc ccagtactt cccgatcat 
      aataaagga ccccctcat gcatatgtt caatgctat 
      gaccacaat gatcgagta tgggcctca ggcgggtca 
      agggggcaa taagtgcaa acatttaga aaaaaaatc 
      acgagaaat cacaacgaa gcccaaatt gagctacaa 
      tgtcgtgga taatggaaa aggggccga aatatatgt 
      ctcaaacga agacgattc aaacatgac cacagtcct 
      cgaaattga agatttgca aataaggga caaaccaaa 
      tttaaactt gcggcgaga atcgaagca aaatcagga 
      aatcaagaa aacattttt ctacaatac gactgatcc 
      cttgtccaa tcccctgat ccagacttt acaaatcac 
      caaaagcga aatcaattc caatgatac ctcccgaca 
      gtcgcctcc gattcgtga ccaggagct aggtgaaga 
      cgaaataga gctggagga gttggataa ggcggaaga 
      cgtgcaagt gtcacacga tggaaacaa gaaactctt 
      cagtaagga taacaccgg aagtgggat ttttgtcca 
      taaaatcaa agtcaggaa aggtggagt ggccatcgc 
      aggacctgg aggtatcgc aaccgctgg cagtggtgg 
      cactgcgat tgttggacc caatggatt tgcttatac 
      acacccaga tagtctcgc aattgcggg ttcagggac 
      taaagtggt ggctgtgga accgacgat taatcttgc 
      gacggttgt taatgacca taagaataa gacgagggg 
      gcaagggca tgcagcacc gtcaaggtt ggggaaagt 
      tgtggcggt ggggccggt tatttatta taataaagg 
      atacataat tttccctca tggacttcg ttacccacg 
      ttggcctcc tgcatccca aagtcaaac taccattcc 
      ttcaaaccc acaaatcaa tgttcttca aactaacat 
      acaaaacag taaattcgt gaaagtgtc accaaaaga 
      agaaatcaa agtaaatga attatccaa agatggaaa 
      taacaacac gatagcacc atataaagc tcatccttt 
      gtttcactt tttaaaaaa tcgcaatac tattaatac 
      tgacaggat tatcagttt tcgtaacga tttgtcaaa 
      ttctgaaaa aatcacaac tctgatttt aaaaccgat 
      ggctaaagc tgttgctgg tattgaagg gcaagcaat 
      cgctaaccc tttatctag ggctatttt gaggcaagg 
      gatgaatgt tgatatttt gtttgaacc tgacgccgt 
      tgccattgc aggccctgg gggcatagc ccatgctca 
      aagtgattt agagattag ttatgaaga ttttccaga 
      aaccaaaaa tttctagtt catttttgt aaatttgta 
      catagttgt aaataaaac taagtttca tca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY