Status
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Gene information
General information
TC000754 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_007417.3: 6061720..6065437
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
    TC000754
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08990

    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: 30.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (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
    • >TC000754 RA
      MAVFSLLGS KAILAICNF LLLACGFLL ITGGMLVLS 
      DQEKILLSR LLTPGPLSN MPQPFLYYV GIGLAAVGL 
      VLTSTGILG CWASCMNNY YLLTSYFLI IMIVLVGEC 
      AVYAIAWAW PNCLGLEVD PEDLTKSLQ RNYGNVEQV 
      QFTAAIDLA QTLFNCCGV ESANEYDTS LWRLQGLGA 
      NLAIPRSCC KLENCDDSK AYLDPKPIN LTLCQALEP 
      NRHEGYRHL EGCNDGLQQ WYRQHYLVF LGIGLVAVL 
      VEFLVLLST ILMCTRIYK HNQEIKEDA KKISAEPKT 
      GVSSVQSFQ RRTPTNAYS NETYAMTNS FRQNYKLVD 
      RV
    CDS sequence
    • >TC000754 RA
      atggctgtg ttctcgctc cttggcagt aaggctatt 
      ttagccatc tgcaacttt ctgctgctg gcttgtggc 
      tttctgctg atcaccgga ggaatgctg gttttatca 
      gaccaggaa aaaatcctg ctctctcgg ttgttaacc 
      ccgggccca ctatcaaac atgcctcaa ccttttctt 
      tattacgta ggaattggt ttagccgcc gtaggttta 
      gttctgaca tcgacgggt attttagga tgttgggcc 
      tcttgcatg aacaactac tacctactg acatcgtac 
      ttcctgatc ataatgatt gtccttgtg ggtgaatgc 
      gccgtttat gcaatagct tgggcttgg cctaattgt 
      ctgggtttg gaagtggat cccgaagac ttaaccaaa 
      agtttacaa agaaattac ggcaatgtt gaacaagtt 
      cagttcacg gcagctatc gatctagcg caaactctg 
      tttaattgt tgcggagtt gaatctgcc aacgaatat 
      gatacttca ctgtggcgt ttgcaaggt ttaggagca 
      aatcttgca attcctcga agttgttgc aagttggaa 
      aactgtgac gattcgaaa gcttatttg gacccaaaa 
      cccataaat ctgacgttg tgccaagca ctcgaaccc 
      aacagacac gaaggctac cgacattta gaaggttgc 
      aatgatggg cttcaacaa tggtaccgc cagcactat 
      ctagttttc ctagggata ggtctagta gcagtacta 
      gtggagttt ctagtactg ctaagtact atcttgatg 
      tgtacaaga atttacaaa cataatcaa gaaatcaaa 
      gaagatgcc aaaaaaatt agcgccgaa ccaaagact 
      ggggtcagt tctgtacaa agtttccaa aggaggact 
      cccacaaat gcatacagt aatgaaacg tatgcaatg 
      actaatagt ttccgacag aactataaa ctggtagat 
      cgggtatga
    mRNA sequence
    • >TC000754 RA
      cattcggat tttagcagg tcacgcaaa gaattaaag 
      ttttaattg caattgcca cttattttt ggtaaactt 
      gtaattaaa tccgttgag gattgaggt tgatggtcg 
      tccgatgtt caaagcatt ctaactttc atcaccgac 
      catgttttc catgcatga actgcaacc ccacttctt 
      tatgctctg ctaattgct gtttccttc ctgcccgat 
      tttaatcta cttttgtta ggtatttta tccatcatt 
      ttgttggga ttctgtgca cgtaccaac aactgtgtc 
      tatgactaa tatgtgaat tagtggcaa ggataataa 
      tggctgagt tttctttcc atcgaacat gcggcgtgt 
      gttaggtga caaaattta acaaataat ggctgtgtt 
      ctcgctcct tggcagtaa ggctatttt agccatctg 
      caactttct gctgctggc ttgtggctt tctgctgat 
      caccggagg aatgctggt tttatcaga ccaggaaaa 
      aatcctgct ctctcggtt gttaacccc gggcccact 
      atcaaacat gcctcaacc ttttcttta ttacgtagg 
      aattggttt agccgccgt aggtttagt tctgacatc 
      gacgggtat tttaggatg ttgggcctc ttgcatgaa 
      caactacta cctactgac atcgtactt cctgatcat 
      aatgattgt ccttgtggg tgaatgcgc cgtttatgc 
      aatagcttg ggcttggcc taattgtct gggtttgga 
      agtggatcc cgaagactt aaccaaaag tttacaaag 
      aaattacgg caatgttga acaagttca gttcacggc 
      agctatcga tctagcgca aactctgtt taattgttg 
      cggagttga atctgccaa cgaatatga tacttcact 
      gtggcgttt gcaaggttt aggagcaaa tcttgcaat 
      tcctcgaag ttgttgcaa gttggaaaa ctgtgacga 
      ttcgaaagc ttatttgga cccaaaacc cataaatct 
      gacgttgtg ccaagcact cgaacccaa cagacacga 
      aggctaccg acatttaga aggttgcaa tgatgggct 
      tcaacaatg gtaccgcca gcactatct agttttcct 
      agggatagg tctagtagc agtactagt ggagtttct 
      agtactgct aagtactat cttgatgtg tacaagaat 
      ttacaaaca taatcaaga aatcaaaga agatgccaa 
      aaaaattag cgccgaacc aaagactgg ggtcagttc 
      tgtacaaag tttccaaag gaggactcc cacaaatgc 
      atacagtaa tgaaacgta tgcaatgac taatagttt 
      ccgacagaa ctataaact ggtagatcg ggtatgatg 
      gtgggttag aggccttgt tttaccaaa caatgcccg 
      tgtttatga cctaagtaa cgttgaaat tgagtcaat 
      gttgtggta atttagcgt acggtaaag ttaggatat 
      ttatatatt tttgaaata aaattttac actatta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY