Status
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Gene information
General information
TC016221 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_007425.3: 4380244..4382221
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
    TC016221
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07130

    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 immediately after eclosion - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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
    • >TC016221 RA
      MFTKTKNLN LVYVLSFVD LFAVGLTVP LFSNHLREL 
      GASHFTIGL LNSLYSGLQ VISGPIVGS WSDVRDRRS 
      VLQITLLLC SLGYVALGL TNSLLVIAS VRILLGVTK 
      HTQSICKAI ITDLVPPSD RASAFGRST AFGSLGFII 
      GPTLGGHLI ERKNGFFHV CLFTSVLFI INVGITCAI 
      NEIKSPKKR QLNHESVPI FAKLGHEFN KSVRDMGEI 
      DWGAFWDVF LLRFIFGFS VTMYFSQQS VYLKEQFKM 
      AQRHVGYTI SFFSASGMA AAFLLHYIN YFYKGDVSC 
      LKRLTHFFL LMTLSLVCL YFAPNIELF LLVLVPFSL 
      SCTVLRIVS MELMLKNAS TTHRGSLSG TSNSIMSVA 
      RFVTPVTSG LISDKLGGS SALLFTAVP PLIGTLVSV 
      WMKVRNGDK KNN
    CDS sequence
    • >TC016221 RA
      atgtttacc aagaccaaa aatctgaac ctagtctat 
      gtcctgtct tttgtggac ctgtttgcc gtgggcctc 
      acagtgccc ctattcagc aaccattta cgggagtta 
      ggagcttcc catttcact ataggcctc ctaaactcg 
      ctatactca ggactccaa gtcatttca ggccccatt 
      gtgggcagt tggagcgat gttagggac cgcagatcc 
      gttttacag atcacttta ctgctctgc agtctcggc 
      tacgtggcc ctggggctc acaaactca cttttggtc 
      atcgcaagc gttcgaatt ttgctcgga gttacaaaa 
      cacactcaa agcatttgc aaggctatt ataaccgat 
      ttggtgccc ccttcggac cgggccagc gctttcggc 
      cgctccaca gcctttggt tccctcggt ttcataatc 
      gggccaacg ctggggggc cacttaatc gagcgaaaa 
      aacggcttt ttccacgtg tgtcttttc acaagtgtg 
      ctttttatc atcaatgtt ggcataact tgcgcaatt 
      aatgaaatc aaatcacca aaaaagcgg caattaaat 
      catgaaagt gttcctatt tttgcaaaa cttggacac 
      gagtttaac aagtcggtg agagacatg ggggagatc 
      gactggggg gctttttgg gacgtgttc ctgctacgg 
      tttattttc ggtttttcg gttacgatg tatttctcg 
      caacagtcg gtttatttg aaggagcaa ttcaaaatg 
      gcgcagcgc catgttggt tacaccatt tcgtttttt 
      agcgcgtct ggaatggcg gccgctttt ttgctacat 
      tacattaat tatttctac aaaggggac gtttcgtgt 
      ttgaaacgt ctaactcat ttttttctt ttaatgact 
      ttgagtctt gtttgtttg tattttgcg ccaaatatc 
      gagttgttt ttgttggtt ttggttccc ttctcgttg 
      agttgtacg gttttaagg atagttagc atggaattg 
      atgctcaaa aatgcgtca actactcac agggggtct 
      ctatcaggg acttccaac agtattatg tcagttgct 
      aggtttgta actccggtt acttccggg ttaattagt 
      gataagttg gggggatct agtgctctg ctttttacg 
      gctgtgccg cccttgatt gggacgctt gtgtcggtt 
      tggatgaaa gtcaggaat ggtgataag aaaaacaac 
      taa
    mRNA sequence
    • >TC016221 RA
      ctagtagaa taactgaaa agggaatca taacctctc 
      cttgattat gcaactagt catacaata cgttttttc 
      aattaaatt catcaatat gcaagtgca tatcttatg 
      tttcaacta attaagtaa ttacgcatt tttgtttta 
      gtttttcgg catttttaa ttaacattt taaattttg 
      aaggttatc tgtcaagac ataacctca cataaaaaa 
      taacctctg aacattttt aagttatct cttatcaag 
      tcaattatt taattccta acgtcacac tacttgctt 
      tacactcgt gagtgccgc ccagttatc gaatctgat 
      tagataagc acaagtgtg attattatt aaataatag 
      caacataac tcagcaaaa atttcggta tgatggcgc 
      acatgtttt gctttattt gttacatca cgaaataac 
      gaaatgttt accaagacc aaaaatctg aacctagtc 
      tatgtcctg tcttttgtg gacctgttt gccgtgggc 
      ctcacagtg cccctattc agcaaccat ttacgggag 
      ttaggagct tcccatttc actataggc ctcctaaac 
      tcgctatac tcaggactc caagtcatt tcaggcccc 
      attgtgggc agttggagc gatgttagg gaccgcaga 
      tccgtttta cagatcact ttactgctc tgcagtctc 
      ggctacgtg gccctgggg ctcacaaac tcacttttg 
      gtcatcgca agcgttcga attttgctc ggagttaca 
      aaacacact caaagcatt tgcaaggct attataacc 
      gatttggtg cccccttcg gaccgggcc agcgctttc 
      ggccgctcc acagccttt ggttccctc ggtttcata 
      atcgggcca acgctgggg ggccactta atcgagcga 
      aaaaacggc tttttccac gtgtgtctt ttcacaagt 
      gtgcttttt atcatcaat gttggcata acttgcgca 
      attaatgaa atcaaatca ccaaaaaag cggcaatta 
      aatcatgaa agtgttcct atttttgca aaacttgga 
      cacgagttt aacaagtcg gtgagagac atgggggag 
      atcgactgg ggggctttt tgggacgtg ttcctgcta 
      cggtttatt ttcggtttt tcggttacg atgtatttc 
      tcgcaacag tcggtttat ttgaaggag caattcaaa 
      atggcgcag cgccatgtt ggttacacc atttcgttt 
      tttagcgcg tctggaatg gcggccgct tttttgcta 
      cattacatt aattatttc tacaaaggg gacgtttcg 
      tgtttgaaa cgtctaact cattttttt cttttaatg 
      actttgagt cttgtttgt ttgtatttt gcgccaaat 
      atcgagttg tttttgttg gttttggtt cccttctcg 
      ttgagttgt acggtttta aggatagtt agcatggaa 
      ttgatgctc aaaaatgcg tcaactact cacaggggg 
      tctctatca gggacttcc aacagtatt atgtcagtt 
      gctaggttt gtaactccg gttacttcc gggttaatt 
      agtgataag ttgggggga tctagtgct ctgcttttt 
      acggctgtg ccgcccttg attgggacg cttgtgtcg 
      gtttggatg aaagtcagg aatggtgat aagaaaaac 
      aactaattg tgataatgt tagttagta aagatttta 
      ttttatctt gttttattt gcgtcccag tttcttgtc 
      cttttccct tattataat tttacaaaa aataattat 
      tcgagtgaa tgaaactaa acctgaact gaataa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY