Status
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Gene information
General information
TC000121 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_007418.3: 10894700..10899479
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
    TC000121
    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
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    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.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02980

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 3 (9 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
    • >TC000121 RA
      MRLFNRLTN TMSGQKSQI FPQILATTI VSWLSIIVG 
      YSSAYYSPA ESTMITDLN MTKNEASWV CSLLPVGAL 
      VGSLSGGPS LDWLGRKGT LILTDMFFL TAWCINYFS 
      TNCWTMYTS RILNGLSVG IASFALPVY LAETLEPEI 
      RGRLGLFPT AFGNFGILL CFVTGSVFE WRGLAGIGA 
      LLTVPFLGA VWVVPETPR WYMSKRRVQ RAQRALQWF 
      GYSDKGLQD LNQNKPKLR YSKSHLKVL GIVLGLMFF 
      QQFSGINAI IFYTTRIFQ EAGSSLNAS LCTAIIGLV 
      NFISTFIAA ILVDRLGRK ALMYTSSAV MALMLAVLG 
      LYFYLLRQG VELGSLEWL PLSCFIFYV LGFSFGWGP 
      IPWLMMGEI LPAVIRGQA ASISAAFNW SCTFIITKT 
      FPLFVDSVG AHYAFWFFC IFMICSMVF LKLAVPETK 
      KRTLEDIER ILASS
    CDS sequence
    • >TC000121 RA
      atgcgcctc ttcaatcgt ctcactaac accatgagc 
      ggccaaaaa tcgcaaatt ttcccccaa atcctggcc 
      acaaccatc gtctcctgg ctctccata atcgtcggc 
      tactcctcc gcctactac tcccccgcc gaatcaaca 
      atgatcacc gacttgaac atgacaaaa aacgaggcg 
      tcctgggta tgcagcctc ctcccggtg ggggccctc 
      gtcggcagc ctctccggg gggccctcc ctcgactgg 
      ctcggccgc aagggcacc ctcatcctc accgacatg 
      tttttccta acggcttgg tgcatcaac tatttttcg 
      acaaactgt tggaccatg tacaccagt cggattttg 
      aacggttta agtgtgggg attgcttcg ttcgcactc 
      ccggtatat ctagccgag acgctggag cccgagatc 
      agggggcgc ctgggtctc ttccccaca gcgttcggg 
      aatttcggg attttgctg tgtttcgtc acggggagt 
      gtgttcgag tggagggga ctggcgggg attggggcc 
      ctgctcacg gtcccgttc ctgggggct gtgtgggtg 
      gtgcccgag acgccccgc tggtacatg tccaagagg 
      cgggttcaa agggcacag agggccctc cagtggttt 
      ggttactcg gacaagggg ttgcaagac ttgaaccag 
      aacaaaccc aaactgaga tactcaaag tcgcacttg 
      aaggtgcta gggattgtg ttgggattg atgttcttc 
      caacagttc agtgggatt aacgctatt attttctac 
      acaactcgg atttttcaa gaggcgggt tcgtcccta 
      aacgcctca ctttgtacc gcaattata ggcttagtt 
      aattttatt tcaacgttt attgcggcg attctagtc 
      gatcgattg ggccggaag gcccttatg tacacttct 
      agtgccgtt atggcccta atgttggca gtccttggc 
      ctgtacttc tacttgttg cggcaagga gtggagttg 
      gggtcgctt gagtggctc ccactgtcc tgttttatt 
      ttctacgtt ttggggttt tcgttcggt tgggggccg 
      attccctgg ctcatgatg ggggagatc ctcccggcg 
      gttatccgg ggtcaggcg gcgtccatt tcagcggcg 
      ttcaactgg agttgcact tttattatt acgaagacg 
      tttccgctt tttgtcgat tcagttggc gcacattac 
      gccttctgg ttcttctgc atctttatg atctgttcg 
      atggttttc ctcaagttg gcagtgccg gaaacgaag 
      aagcggaca ctcgaggac attgagaga atattggct 
      agtagttaa
    mRNA sequence
    • >TC000121 RA
      tgtttcccc aaaatgtgc catagatcc agtgcccca 
      cgatgaagc ccactaaaa aatgcgcct cttcaatcg 
      tctcactaa caccatgag cggccaaaa atcgcaaat 
      tttccccca aatcctggc cacaaccat cgtctcctg 
      gctctccat aatcgtcgg ctactcctc cgcctacta 
      ctcccccgc cgaatcaac aatgatcac cgacttgaa 
      catgacaaa aaacgaggc gtcctgggt atgcagcct 
      cctcccggt gggggccct cgtcggcag cctctccgg 
      ggggccctc cctcgactg gctcggccg caagggcac 
      cctcatcct caccgacat gtttttcct aacggcttg 
      gtgcatcaa ctatttttc gacaaactg ttggaccat 
      gtacaccag tcggatttt gaacggttt aagtgtggg 
      gattgcttc gttcgcact cccggtata tctagccga 
      gacgctgga gcccgagat cagggggcg cctgggtct 
      cttccccac agcgttcgg gaatttcgg gattttgct 
      gtgtttcgt cacggggag tgtgttcga gtggagggg 
      actggcggg gattggggc cctgctcac ggtcccgtt 
      cctgggggc tgtgtgggt ggtgcccga gacgccccg 
      ctggtacat gtccaagag gcgggttca aagggcaca 
      gagggccct ccagtggtt tggttactc ggacaaggg 
      gttgcaaga cttgaacca gaacaaacc caaactgag 
      atactcaaa gtcgcactt gaaggtgct agggattgt 
      gttgggatt gatgttctt ccaacagtt cagtgggat 
      taacgctat tattttcta cacaactcg gatttttca 
      agaggcggg ttcgtccct aaacgcctc actttgtac 
      cgcaattat aggcttagt taattttat ttcaacgtt 
      tattgcggc gattctagt cgatcgatt gggccggaa 
      ggcccttat gtacacttc tagtgccgt tatggccct 
      aatgttggc agtccttgg cctgtactt ctacttgtt 
      gcggcaagg agtggagtt ggggtcgct tgagtggct 
      cccactgtc ctgttttat tttctacgt tttggggtt 
      ttcgttcgg ttgggggcc gattccctg gctcatgat 
      gggggagat cctcccggc ggttatccg gggtcaggc 
      ggcgtccat ttcagcggc gttcaactg gagttgcac 
      ttttattat tacgaagac gtttccgct ttttgtcga 
      ttcagttgg cgcacatta cgccttctg gttcttctg 
      catctttat gatctgttc gatggtttt cctcaagtt 
      ggcagtgcc ggaaacgaa gaagcggac actcgagga 
      cattgagag aatattggc tagtagtta attagcata 
      cttaccact tgtacatat tcatcaaca actgcaaat 
      aaatttggt gcaacacc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY