Status
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Gene information
General information
TC008712 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: 14571252..14576199
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
    TC008712
    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_01396

    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: 10.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (9 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008712 RA
      MEPSSLQIV SANSDCTIT VDEEALRCI LTKNEIKDR 
      YLSIISIAG VFRQGKSFL LNFLLRYLR IKYREMRDV 
      TDWLKAEDG PLKGFSWSS GSKRHTTGI HMWSEVFLT 
      EKPTGERVA ILLIDTQGG FDHQTTFED CARIFAFST 
      LISSVQIFN VMRSIKQYD LTHLQCFGG YGSLMTNCM 
      SVPFQNLCF LVRDWACPY EKPYGAEGG SAYLQEVFN 
      SPQKEVKDQ IENLKGLFN ELSCFLLPY PGRIVDASD 
      SFDGNLDDI DEIFKIQVA QFVTNLLSP ENVVLKTIS 
      GHRVKAEDL LCYVHEYSN VLKGDSLPK IDTIFKATV 
      EAQHKSASS QAFKLYKRN MDVECRRSP RGWTMEELY 
      KRHTTNKKR AVDLYKQVK KFDDAVVFD KYLVELKES 
      MDVEFQHYR QINEEKVRE FEENRRRLE ERINLTKRQ 
      MPSGSGGLS TLGTGEKIG VAAGVLGAG LAFAFGASK 
      LFGQKGSND
    CDS sequence
    • >TC008712 RA
      atggaaccc agctctctc caaattgtc agtgcaaac 
      tccgactgt acaatcaca gtggatgag gaagccctt 
      cgctgcatc ttgacaaaa aatgaaatc aaggacaga 
      tatttatcg attatttcc atcgctggg gtatttagg 
      caaggcaaa tcatttctc cttaatttc ttactgcgt 
      tacttacga attaaatat cgcgaaatg agagatgtg 
      accgattgg ttgaaagca gaagatggg cctttgaaa 
      ggtttcagc tggtcttcg ggctccaaa cgccatacc 
      actggaatt cacatgtgg tctgaagtt ttcctcacc 
      gaaaaacca acgggcgag agggtcgcc atactttta 
      atcgacacg caaggcggt ttcgaccac caaaccacc 
      tttgaggac tgcgcccga atttttgct ttcagtacc 
      ttgatcagt tcggtgcag attttcaac gtcatgcgg 
      agcatcaaa cagtatgac ctgacccat ttgcaatgt 
      ttcggaggc tacggtagt ctaatgacc aactgtatg 
      tctgtgcct ttccaaaat ttgtgtttc ctggtgcgg 
      gattgggct tgtccttat gagaagccc tatggcgct 
      gaaggtggg agcgcctac ctgcaggag gtcttcaac 
      tcgccccag aaagaagtc aaggaccaa attgaaaat 
      cttaaagga cttttcaac gaactgagt tgttttcta 
      ttgccttat cccggtcgc attgttgac gcgtctgat 
      tcgtttgac ggaaatttg gacgacatt gatgagata 
      tttaagatt caagtggcg cagtttgtg acaaatttg 
      ttgtcaccc gaaaatgtg gtcttgaaa acgattagc 
      ggccacaga gttaaggct gaggatttg ctttgctac 
      gttcacgaa tacagcaat gtcctgaag ggtgattcg 
      ttgccgaaa attgatacc atttttaag gccactgtt 
      gaagcgcag cacaaatct gcgtcgtct caagccttc 
      aagttgtac aagagaaac atggatgtt gaatgcaga 
      cgcagccct agaggctgg actatggag gaactgtat 
      aaaagacac acaactaat aagaaaaga gcagtcgac 
      ctttacaag caagtgaaa aaatttgac gacgcggtt 
      gttttcgac aaatatttg gttgaactg aaggaaagt 
      atggatgtg gagtttcaa cattataga caaataaac 
      gaagaaaag gtgcgcgag tttgaagaa aatagacga 
      agattggaa gaacgcata aatttaacc aagcgtcaa 
      atgccgagt ggaagtggt gggttgagt acactagga 
      acaggcgaa aaaatcgga gtggctgct ggggttctt 
      ggggccgga ttggctttt gcctttggt gcttcgaaa 
      ttgtttggt cagaaaggg agcaacgat taa
    mRNA sequence
    • >TC008712 RA
      tccattttt ctttgtgta gttctgtta cgtggcaat 
      aaggtggtt gtgcgttaa atttcgtta ttttttcca 
      aatttgttt gttcacaat tgtttcttc actgtaggt 
      gttcacgat ggaacccag ctctctcca aattgtcag 
      tgcaaactc cgactgtac aatcacagt ggatgagga 
      agcccttcg ctgcatctt gacaaaaaa tgaaatcaa 
      ggacagata tttatcgat tatttccat cgctggggt 
      atttaggca aggcaaatc atttctcct taatttctt 
      actgcgtta cttacgaat taaatatcg cgaaatgag 
      agatgtgac cgattggtt gaaagcaga agatgggcc 
      tttgaaagg tttcagctg gtcttcggg ctccaaacg 
      ccataccac tggaattca catgtggtc tgaagtttt 
      cctcaccga aaaaccaac gggcgagag ggtcgccat 
      acttttaat cgacacgca aggcggttt cgaccacca 
      aaccacctt tgaggactg cgcccgaat ttttgcttt 
      cagtacctt gatcagttc ggtgcagat tttcaacgt 
      catgcggag catcaaaca gtatgacct gacccattt 
      gcaatgttt cggaggcta cggtagtct aatgaccaa 
      ctgtatgtc tgtgccttt ccaaaattt gtgtttcct 
      ggtgcggga ttgggcttg tccttatga gaagcccta 
      tggcgctga aggtgggag cgcctacct gcaggaggt 
      cttcaactc gccccagaa agaagtcaa ggaccaaat 
      tgaaaatct taaaggact tttcaacga actgagttg 
      ttttctatt gccttatcc cggtcgcat tgttgacgc 
      gtctgattc gtttgacgg aaatttgga cgacattga 
      tgagatatt taagattca agtggcgca gtttgtgac 
      aaatttgtt gtcacccga aaatgtggt cttgaaaac 
      gattagcgg ccacagagt taaggctga ggatttgct 
      ttgctacgt tcacgaata cagcaatgt cctgaaggg 
      tgattcgtt gccgaaaat tgataccat ttttaaggc 
      cactgttga agcgcagca caaatctgc gtcgtctca 
      agccttcaa gttgtacaa gagaaacat ggatgttga 
      atgcagacg cagccctag aggctggac tatggagga 
      actgtataa aagacacac aactaataa gaaaagagc 
      agtcgacct ttacaagca agtgaaaaa atttgacga 
      cgcggttgt tttcgacaa atatttggt tgaactgaa 
      ggaaagtat ggatgtgga gtttcaaca ttatagaca 
      aataaacga agaaaaggt gcgcgagtt tgaagaaaa 
      tagacgaag attggaaga acgcataaa tttaaccaa 
      gcgtcaaat gccgagtgg aagtggtgg gttgagtac 
      actaggaac aggcgaaaa aatcggagt ggctgctgg 
      ggttcttgg ggccggatt ggcttttgc ctttggtgc 
      ttcgaaatt gtttggtca gaaagggag caacgatta 
      acatgtcat ggaattata ttgggtaag tgagctttt 
      ctattattt ttgcaatta aatttgctt atgataa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY