Status
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Gene information
General information
TC016387 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_007422.5: 6744202..6747480
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
    TC016387
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06011

    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: 80.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (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


    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    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): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva segment partially randomnot present - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen constricted - 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): 50% - 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: -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
    • >TC016387 RA
      MNATEMSVL LKSNLSLDD KDASVKTQL TLYDILIPA 
      IGGIIMLLN LLVVISSGL ILRKGSQPR STYLFLGNV 
      AMTDLLTGV AVVFGQLYP QENRDHNMC ALQLGMIVA 
      STLTSVYSV GLIAIDRFL YILHGLQYQ QFIFPTRAR 
      ILIFATWVI GCIVGFMPL FGWYGDTDN GRICWFILL 
      APRNLVLLT VIIGVIPIV LVVILYSLI LYHAIKNIV 
      TLQKSTTQT NEVTEADLK NLRRSRGRP QNTENNSVG 
      KNFFAKTKP STSVKSPSK WRAIKVVLF TTGSFVITW 
      SPYFVASLI YVYQCENID SKKCKNLRI IIASPLAIL 
      GFTNSLINP IIYAWWHKG FRTYVQKRM STVIMRTRW 
      KRNSIDNTT KSTSSASNK QNGSKIAPI KEEAAGNPA
    CDS sequence
    • >TC016387 RA
      atgaacgca accgaaatg agtgttctt ttaaaatca 
      aatctctcc ctcgatgac aaagatgct tcggtaaaa 
      actcaactg actttatac gacattcta ataccagcc 
      atcgggggg ataatcatg ctcttaaat ctcctcgtc 
      gtaatctcg agcggatta atattgagg aaaggttcg 
      caaccccgt tcgacttat ttgttttta ggaaacgta 
      gcaatgact gatttactg acgggagtg gcggtagtt 
      tttggccaa ctgtacccc caggaaaac cgcgatcac 
      aacatgtgt gcactccaa ttaggtatg atagtggcg 
      agcactttg acttccgtc tattcagtc ggattaatt 
      gcaattgat cgttttttg tacattctt catggcctg 
      caataccag caatttatt ttccccact agagcgaga 
      atattaatt ttcgcaaca tgggttata ggatgcatc 
      gttggattt atgccattg tttgggtgg tacggagac 
      acagataac ggcagaatc tgctggttt attctctta 
      gccccccga aatttagtc ctacttact gtcataatt 
      ggggtaatc cctatagta ctagtcgta atcctctac 
      tccctaatt ttgtaccac gccattaaa aatatcgtg 
      acacttcaa aaatcgaca actcaaacc aatgaagtg 
      accgaagcc gatttgaaa aatctacgg aggtctcgg 
      ggccggcct cagaacacc gaaaataac tcggtagga 
      aaaaacttt ttcgccaaa acgaaacct tcaaccagt 
      gttaaatcg ccgagcaaa tggagggcc atcaaagtt 
      gttttattc acgaccgga agtttcgta attacgtgg 
      tctccgtat ttcgttgcg agcttgatt tacgtgtac 
      cagtgcgaa aacatcgac agcaaaaaa tgcaaaaat 
      ttgcggatc ataatcgcg agtccctta gcgatttta 
      ggcttcacg aatagtctg atcaatccg atcatttac 
      gcttggtgg cataagggt tttaggacg tacgtccag 
      aaaagaatg agtactgta ataatgagg acgcgatgg 
      aagagaaat tcgattgat aacacgact aaatcgaca 
      tcgagtgct agtaataag caaaacggg agcaagatt 
      gcgccgatt aaggaggaa gcggccgga aatccggca 
      taa
    mRNA sequence
    • >TC016387 RA
      ttcggtttg aatcattca agaatctat tttaagttt 
      tactgacac ggaacagtg aatccaaca gtcgatttt 
      aagtccacc tgtgaacgt gcagttatt ttataagaa 
      aagaactgt gagttgtat tattagtag taaactatc 
      cttgatttc tcaacaatg aatcaatgg acaccagtc 
      tactactga taccgtttc taaacgcta ctactacgc 
      aaagtgtgt cagtattgt gcctatttt cgataaaag 
      acctcttcc acttttcgt tcacgaatt agtcgttta 
      aaaacatta ggaagtgct taatatatg aatcacgta 
      aggtactag catgacagt ttcctcaat tatgaagtc 
      cgcactaca gtttcaacc aaaagttat acaagcata 
      acgtattta atgttttat tcatacttg gaactacat 
      gaaaattca gttaagttc aaggttggg tggatcaag 
      gattttaga gccgcaact gggcttttg attgtaaag 
      agggaatcc ccgctctaa tcttcagtg ataagaaaa 
      ccaattgca caggaagaa tgtttccgg aaaaatgaa 
      taaaacagt tgcacacga ataaaacca caaatgaac 
      gcaaccgaa atgagtgtt cttttaaaa tcaaatctc 
      tccctcgat gacaaagat gcttcggta aaaactcaa 
      ctgacttta tacgacatt ctaatacca gccatcggg 
      gggataatc atgctctta aatctcctc gtcgtaatc 
      tcgagcgga ttaatattg aggaaaggt tcgcaaccc 
      cgttcgact tatttgttt ttaggaaac gtagcaatg 
      actgattta ctgacggga gtggcggta gtttttggc 
      caactgtac ccccaggaa aaccgcgat cacaacatg 
      tgtgcactc caattaggt atgatagtg gcgagcact 
      ttgacttcc gtctattca gtcggatta attgcaatt 
      gatcgtttt ttgtacatt cttcatggc ctgcaatac 
      cagcaattt attttcccc actagagcg agaatatta 
      attttcgca acatgggtt ataggatgc atcgttgga 
      tttatgcca ttgtttggg tggtacgga gacacagat 
      aacggcaga atctgctgg tttattctc ttagccccc 
      cgaaattta gtcctactt actgtcata attggggta 
      atccctata gtactagtc gtaatcctc tactcccta 
      attttgtac cacgccatt aaaaatatc gtgacactt 
      caaaaatcg acaactcaa accaatgaa gtgaccgaa 
      gccgatttg aaaaatcta cggaggtct cggggccgg 
      cctcagaac accgaaaat aactcggta ggaaaaaac 
      tttttcgcc aaaacgaaa ccttcaacc agtgttaaa 
      tcgccgagc aaatggagg gccatcaaa gttgtttta 
      ttcacgacc ggaagtttc gtaattacg tggtctccg 
      tatttcgtt gcgagcttg atttacgtg taccagtgc 
      gaaaacatc gacagcaaa aaatgcaaa aatttgcgg 
      atcataatc gcgagtccc ttagcgatt ttaggcttc 
      acgaatagt ctgatcaat ccgatcatt tacgcttgg 
      tggcataag ggttttagg acgtacgtc cagaaaaga 
      atgagtact gtaataatg aggacgcga tggaagaga 
      aattcgatt gataacacg actaaatcg acatcgagt 
      gctagtaat aagcaaaac gggagcaag attgcgccg 
      attaaggag gaagcggcc ggaaatccg gcataattt 
      tgtagagaa aatatagtg tacaactct gt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY