Status
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Gene information
General information
TC012842 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_007424.3: 15722144..15726611
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
    TC012842
    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_05336

    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
    embryo/egg without visible larval cuticle in cuticle preparation - 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
    • >TC012842 RA
      MNESSNLTV DEGVGDPGL SMTIIFQTI LFAAVCLVG 
      LVGNTLVIY VVIRFSKMQ TVTNMYIVN LAIADECFL 
      IGIPFLLVT MINKQWIFG NAACKAYMI STSINQFTS 
      SIFLCIMSA DRYIAVCHP ISSPKWRTP LISRIVSLL 
      AWTCSIMLM TPIFEHATE TESPSGRKS CIIDWHNND 
      NFSENSTAA TGATVFTTY TFVFSFAIP LLLILVFYC 
      LVIEKLKTV GPKNKSKEK KRSHRKVTN LVLTVVTVY 
      VFCWLPYWI TQIAMLCNT SLSTTHSPF VVTLHLMAS 
      CLSYSNSAM NPILYAFLS DNFKKSFLK ACTCAAGKD 
      VNATLHLEN SVFPRKNKH GSERMRPTR GTSICPNNE 
      DECDMGPLV SRGDQSTSA ITMTSRTNI TSLGDSRET 
      ISKSNAVKN GNIVTIHPT CL
    CDS sequence
    • >TC012842 RA
      atgaacgaa agcagcaac ttaaccgtc gacgaaggc 
      gtcggcgac cccggcctc agcatgacc atcatcttc 
      cagaccatt ctcttcgct gccgtttgc ctcgtcggc 
      ctggtgggc aacaccctc gtcatctac gtggtgatc 
      cgcttctcc aagatgcaa accgtcacc aacatgtac 
      atcgtcaac ctggccatc gccgacgag tgcttcctc 
      atcggcata cccttcctc ctcgtcacc atgatcaac 
      aagcagtgg atttttggc aacgccgcc tgcaaggcg 
      tacatgatc tccaccagc atcaaccag ttcaccagc 
      tcgatcttc ctctgcatt atgagcgct gacagatac 
      attgccgtc tgccacccc atttcctcc cccaagtgg 
      cgaacgccc ttgatctcc aggatcgtc tccctcctg 
      gcgtggacc tgcagcatc atgctgatg acgcccatc 
      ttcgagcac gccacggaa accgaaagt ccttcaggt 
      cgaaagtcg tgcattatc gactggcat aataatgac 
      aacttttcg gagaattcg acagcggcg actggggcc 
      accgttttt acgacttat acttttgtc tttagtttc 
      gcgattcct ctacttttg attcttgtt ttctattgt 
      ttggttatc gagaaattg aagacagtt ggaccgaaa 
      aataagtca aaggagaag aaaagatcg cataggaaa 
      gtcactaat ttggttttg acggtggtt acagtctat 
      gtcttctgt tggctgccc tattggatc acgcagatt 
      gctatgctt tgcaatact tcactctcc accacccat 
      tctccgttc gtggtgact ttgcacttg atggcctcg 
      tgcctcagc tactccaac tcagcgatg aatcccatc 
      ctttacgct ttcctcagc gacaatttc aagaaaagc 
      ttcctgaag gcgtgcact tgcgccgcc ggtaaggac 
      gtcaacgcc actctccat ctggagaat agcgttttt 
      ccccggaaa aacaagcac ggttccgag cggatgcga 
      ccaactcgc ggtacttcg atttgtccg aacaacgaa 
      gacgagtgt gacatggga ccattggtt agcagaggc 
      gatcagtcg acttctgcc atcacgatg acttcaagg 
      acgaacatt acctcgttg ggcgacagt cgagagacc 
      atatcgaag agtaatgcc gttaaaaat ggcaacatt 
      gtgaccatt catccgact tgtttgtaa
    mRNA sequence
    • >TC012842 RA
      gcagatttc aatcacaat taatgggtt ttgttgggc 
      gcaactgag cgacgactt ttacccgtt gcacaatga 
      acgaaagca gcaacttaa ccgtcgacg aaggcgtcg 
      gcgaccccg gcctcagca tgaccatca tcttccaga 
      ccattctct tcgctgccg tttgcctcg tcggcctgg 
      tgggcaaca ccctcgtca tctacgtgg tgatccgct 
      tctccaaga tgcaaaccg tcaccaaca tgtacatcg 
      tcaacctgg ccatcgccg acgagtgct tcctcatcg 
      gcataccct tcctcctcg tcaccatga tcaacaagc 
      agtggattt ttggcaacg ccgcctgca aggcgtaca 
      tgatctcca ccagcatca accagttca ccagctcga 
      tcttcctct gcattatga gcgctgaca gatacattg 
      ccgtctgcc accccattt cctccccca agtggcgaa 
      cgcccttga tctccagga tcgtctccc tcctggcgt 
      ggacctgca gcatcatgc tgatgacgc ccatcttcg 
      agcacgcca cggaaaccg aaagtcctt caggtcgaa 
      agtcgtgca ttatcgact ggcataata atgacaact 
      tttcggaga attcgacag cggcgactg gggccaccg 
      tttttacga cttatactt ttgtcttta gtttcgcga 
      ttcctctac ttttgattc ttgttttct attgtttgg 
      ttatcgaga aattgaaga cagttggac cgaaaaata 
      agtcaaagg agaagaaaa gatcgcata ggaaagtca 
      ctaatttgg ttttgacgg tggttacag tctatgtct 
      tctgttggc tgccctatt ggatcacgc agattgcta 
      tgctttgca atacttcac tctccacca cccattctc 
      cgttcgtgg tgactttgc acttgatgg cctcgtgcc 
      tcagctact ccaactcag cgatgaatc ccatccttt 
      acgctttcc tcagcgaca atttcaaga aaagcttcc 
      tgaaggcgt gcacttgcg ccgccggta aggacgtca 
      acgccactc tccatctgg agaatagcg tttttcccc 
      ggaaaaaca agcacggtt ccgagcgga tgcgaccaa 
      ctcgcggta cttcgattt gtccgaaca acgaagacg 
      agtgtgaca tgggaccat tggttagca gaggcgatc 
      agtcgactt ctgccatca cgatgactt caaggacga 
      acattacct cgttgggcg acagtcgag agaccatat 
      cgaagagta atgccgtta aaaatggca acattgtga 
      ccattcatc cgacttgtt tgtaaaaat ttcgttttt 
      tgatatcat atctgtgac attagtgat ttagcaggg 
      tatttgttt gtgtcaatt taataacta ggatcagtg 
      tctttgtgt ttggatgga taggttcgg ttgtggtcc 
      agacggctg cgatttttt tacgataat tttcccact 
      gttttttta agtgtccta ttctcaact aaatttatt 
      cggggaaaa ttagtggaa aaaattcgc cacctgttg 
      gactattag ttaagttgt taaaatttt gtaaatatt 
      tattcttct ataaatgag acataatgt aattcacaa 
      gattttagt acttgagcc cataaaatc ttgtttgct 
      attacattt tatactttt atatcatag ttttataaa 
      aatcaaaag gtgaaagcc acaaccgat tcatttgta 
      gtggctttc gcccaaaaa ttcaatggc tgttttttc 
      atgttacat gtacatagc gttttagtt aagacctgt 
      gatattaac ataattgaa aaatatgta tataatcac 
      acaattatc gattttgtg taattcccc taccgcacc 
      aatactatt tacaaaaac taactctgt accgacaac 
      ttgccaaat agctgtact acttagtgt gaatgtata 
      caatatatt tctcgtata ataaacaca tacctcaaa 
      agaccacaa tttaaaact cccttacct ttaaacaaa 
      ccgaaaaac aaatataaa tgaataaaa acttttatc 
      ttta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY