Status
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Gene information
General information
TC004234 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.

NW_015451620.1: 125927..128409
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
    TC004234
    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_03709

    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: 20.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    Fertility
    ovary size decreased - Number of animals showing the phenotype: 4
    vitellarium thinner - Number of animals showing the phenotype: 4

    vitellarium shortened - Number of animals showing the phenotype: 4

    egg chamber completenot present - Number of animals showing the phenotype: 4
    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: 90.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

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


    pupal molt not fulfilled (died with pupal and larval features) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection



    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection



    larva lethality late (L7) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004234 RA
      MSETQEQKR WGHLRKVLE RPGPFCHPE FEPSPEIMD 
      FIVTSCKVL VVGAGGLGC ELLKDLALM GFKQIHVID 
      MDTIDLSNL NRQFLFRQK DIGQSKAKV AAAFINKRV 
      PGCQVTPHF CKIQDYDES FYRSFHIMV CGLDSIVAR 
      RWINGMILS LLSYEDGVL DNSTIIPLV DGGTEGFKG 
      NARVIVPGN NACVECTLD LYPPQITYP LCTIANTPR 
      LPEHCIEYV KVVLWPKEN PFNAPLDGD DSQHIGWVY 
      EKSLERASQ FNIPGVTYR LVQGVVKHI IPAVASTNA 
      VIAGVCATE VFKIATSCC LPLNNYMVF NDVDGIYTY 
      TYAAERRDN CVVCSQVPQ TLPIEDPSK VKLKDLIKI 
      LCEDEMFQM KNPGLTTVI DGKNKTLYI STIKSIEER 
      TRDNLNKTL VELGLKDGM DIMVADATS PMTLVFTLK 
      FATSDVEMK
    CDS sequence
    • >TC004234 RA
      atgagcgaa acgcaagaa cagaagcgc tgggggcac 
      ctgcgcaag gtgctggag cgtccgggc cccttttgc 
      cacccggag ttcgagccg tcacccgaa atcatggat 
      tttatcgta acctcctgc aaggtgctt gtcgtgggg 
      gccgggggc ctgggctgc gaactgttg aaggacttg 
      gctttgatg gggttcaag cagatccac gtcatcgac 
      atggacacg atcgacttg tcgaatttg aaccgccag 
      tttctgttc agacagaag gacattggg cagtccaag 
      gccaaagtg gcggcggct ttcatcaac aagcgcgtg 
      cctgggtgc caggtgacg ccccatttt tgcaaaata 
      caagactac gatgagagt ttttatcgg agttttcac 
      attatggtg tgcgggttg gactcgatc gtggccagg 
      aggtggatt aatggcatg attttgtcg ctcttgagc 
      tacgaggat ggggtgctg gataattcg accattatt 
      ccattggtg gatggaggt actgagggt tttaagggc 
      aacgcccgc gtcatagtc cctggcaac aacgcctgt 
      gttgagtgc acccttgac ttgtacccc cctcagatc 
      acctaccct ttgtgcaca atcgccaac acaccccgc 
      ctgcctgaa cactgcatt gaatacgta aaggtggtt 
      ttgtggccc aaggagaac ccctttaat gcgcccctg 
      gacggagac gactcccag cacattggc tgggtttac 
      gaaaagtcc ctggaaagg gcgtcccag ttcaatatc 
      cctggagtg acttaccgc cttgttcaa ggcgtcgta 
      aagcacatt attccagca gtggcgtca actaacgcc 
      gttattgcc ggagtttgc gccacagaa gtgtttaaa 
      atcgcaacg agttgttgt ctaccgttg aataattac 
      atggttttc aatgacgtg gacgggatt tacacttac 
      acttacgca gcggaacgg agggacaat tgtgtggtt 
      tgctcccaa gtgccgcaa actctaccg attgaggat 
      ccgagtaaa gtcaagctg aaggatttg attaaaatc 
      ctgtgtgag gatgagatg tttcaaatg aaaaatcca 
      ggtttaacc acggttatt gatgggaaa aataagact 
      ttgtacatt tccacgatt aagagtata gaggagagg 
      accagggat aatttaaat aagacttta gttgagttg 
      gggcttaag gatggcatg gatatcatg gtcgcagat 
      gctacgtct cccatgacg ttggttttc acacttaag 
      tttgcaacg agcgatgtt gagatgaag taa
    mRNA sequence
    • >TC004234 RA
      cgtgaaata actaaacga gttggcgcg ttagtcact 
      tcctttctg acagttcca attttaaaa acggttaaa 
      aatgagcga aacgcaaga acagaagcg ctgggggca 
      cctgcgcaa ggtgctgga gcgtccggg ccccttttg 
      ccacccgga gttcgagcc gtcacccga aatcatgga 
      ttttatcgt aacctcctg caaggtgct tgtcgtggg 
      ggccggggg cctgggctg cgaactgtt gaaggactt 
      ggctttgat ggggttcaa gcagatcca cgtcatcga 
      catggacac gatcgactt gtcgaattt gaaccgcca 
      gtttctgtt cagacagaa ggacattgg gcagtccaa 
      ggccaaagt ggcggcggc tttcatcaa caagcgcgt 
      gcctgggtg ccaggtgac gccccattt ttgcaaaat 
      acaagacta cgatgagag tttttatcg gagttttca 
      cattatggt gtgcgggtt ggactcgat cgtggccag 
      gaggtggat taatggcat gattttgtc gctcttgag 
      ctacgagga tggggtgct ggataattc gaccattat 
      tccattggt ggatggagg tactgaggg ttttaaggg 
      caacgcccg cgtcatagt ccctggcaa caacgcctg 
      tgttgagtg cacccttga cttgtaccc ccctcagat 
      cacctaccc tttgtgcac aatcgccaa cacaccccg 
      cctgcctga acactgcat tgaatacgt aaaggtggt 
      tttgtggcc caaggagaa cccctttaa tgcgcccct 
      ggacggaga cgactccca gcacattgg ctgggttta 
      cgaaaagtc cctggaaag ggcgtccca gttcaatat 
      ccctggagt gacttaccg ccttgttca aggcgtcgt 
      aaagcacat tattccagc agtggcgtc aactaacgc 
      cgttattgc cggagtttg cgccacaga agtgtttaa 
      aatcgcaac gagttgttg tctaccgtt gaataatta 
      catggtttt caatgacgt ggacgggat ttacactta 
      cacttacgc agcggaacg gagggacaa ttgtgtggt 
      ttgctccca agtgccgca aactctacc gattgagga 
      tccgagtaa agtcaagct gaaggattt gattaaaat 
      cctgtgtga ggatgagat gtttcaaat gaaaaatcc 
      aggtttaac cacggttat tgatgggaa aaataagac 
      tttgtacat ttccacgat taagagtat agaggagag 
      gaccaggga taatttaaa taagacttt agttgagtt 
      ggggcttaa ggatggcat ggatatcat ggtcgcaga 
      tgctacgtc tcccatgac gttggtttt cacacttaa 
      gtttgcaac gagcgatgt tgagatgaa gtaattgtg 
      ttatttatt tttaataaa gaaaattac aaact
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY