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Gene information
General information
TC006293 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_007423.3: 6641162..6645185
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
    TC006293
    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_04104

    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: < 50
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006293 RA
      MWKRFYFAI VVVCVPVLS NISPEHVIS KVLDKLGLT 
      LDYLSEQYE IINVDCLFG VVLAGAIID DTVTHPGPY 
      RAQLRQLKN KTGLIFAKT APLMQQQPS WNYFAKHVV 
      VPELWPKPV RYKFAEFRM AYARESRVK TLFSKRTYE 
      NYTEGFSDQ CLSLIVNST LDIRGKKCR LSHKCQLFV 
      ENLEKGAGY ILTHKLLLL QVARARQCK MSPKSLATA 
      IKKVCASIY TETISAEYF VGLDEIFDL FLEQTLLCG 
      YEGYADFLK FEWLEKILE AQHDSGCFP VRAHTRTRR 
      ETNEFGDGC ADHTTGLGA AVLSLYLNY LIKNVHNVV 
      LASEWF
    CDS sequence
    • >TC006293 RA
      atgtggaaa cggttttat ttcgcgatt gtggtcgtg 
      tgcgtccca gtcctgtca aatatctcg ccagagcat 
      gttatcagc aaagttctg gataagctg ggactcact 
      ctggattat ctttcagaa cagtatgaa ataatcaat 
      gttgattgt ttatttggg gtggtccta gccggcgcg 
      attatcgac gatactgtc actcatcca gggccctat 
      cgggcccaa ctcagacaa ctcaagaat aaaacgggc 
      ttaattttt gccaaaacc gcccctttg atgcaacag 
      caacccagt tggaactat ttcgctaaa cacgtggtg 
      gtgcccgaa ttgtggccc aaacccgtc cgctacaag 
      ttcgccgaa ttccgaatg gcctacgct cgggaaagt 
      cgcgtcaag acacttttc tcgaaacgg acttacgaa 
      aactacacc gagggtttc tccgaccag tgcttatca 
      ctcatcgtc aacagcacg ctggacatt aggggcaaa 
      aagtgccgc ttgagccac aaatgccaa ctttttgtc 
      gaaaatttg gaaaaaggc gctggatac atcctcacc 
      cacaagttg ttgctcctg caggttgcc agggccaga 
      cagtgcaaa atgtccccc aaaagcctg gccactgcc 
      attaaaaaa gtctgcgct agtatttac actgagacg 
      ataagtgcg gagtatttc gtgggtttg gacgaaatt 
      ttcgacctg ttcctcgaa cagacactt ttgtgtgga 
      tatgaggga tacgccgat tttctcaaa ttcgagtgg 
      ttggagaaa atcctcgaa gcccagcac gactccggt 
      tgttttccg gtgagggcc cacacccgg actaggagg 
      gaaaccaac gagtttggg gacggatgt gccgaccac 
      accaccgga cttggagcc gcagttctt agtttatac 
      ttgaactat ttaataaaa aatgtgcat aatgttgta 
      ctcgcttcc gaatggttt tag
    mRNA sequence
    • >TC006293 RA
      gacgacctg ccactggga tttttcccc tatataaaa 
      ccgcgtgtc acctgcgaa ttattttca gtgatgtgg 
      aaacggttt tatttcgcg attgtggtc gtgtgcgtc 
      ccagtcctg tcaaatatc tcgccagag catgttatc 
      agcaaagtt ctggataag ctgggactc actctggat 
      tatctttca gaacagtat gaaataatc aatgttgat 
      tgtttattt ggggtggtc ctagccggc gcgattatc 
      gacgatact gtcactcat ccagggccc tatcgggcc 
      caactcaga caactcaag aataaaacg ggcttaatt 
      tttgccaaa accgcccct ttgatgcaa cagcaaccc 
      agttggaac tatttcgct aaacacgtg gtggtgccc 
      gaattgtgg cccaaaccc gtccgctac aagttcgcc 
      gaattccga atggcctac gctcgggaa agtcgcgtc 
      aagacactt ttctcgaaa cggacttac gaaaactac 
      accgagggt ttctccgac cagtgctta tcactcatc 
      gtcaacagc acgctggac attaggggc aaaaagtgc 
      cgcttgagc cacaaatgc caacttttt gtcgaaaat 
      ttggaaaaa ggcgctgga tacatcctc acccacaag 
      ttgttgctc ctgcaggtt gccagggcc agacagtgc 
      aaaatgtcc cccaaaagc ctggccact gccattaaa 
      aaagtctgc gctagtatt tacactgag acgataagt 
      gcggagtat ttcgtgggt ttggacgaa attttcgac 
      ctgttcctc gaacagaca cttttgtgt ggatatgag 
      ggatacgcc gattttctc aaattcgag tggttggag 
      aaaatcctc gaagcccag cacgactcc ggttgtttt 
      ccggtgagg gcccacacc cggactagg agggaaacc 
      aacgagttt ggggacgga tgtgccgac cacaccacc 
      ggacttgga gccgcagtt cttagttta tacttgaac 
      tatttaata aaaaatgtg cataatgtt gtactcgct 
      tccgaatgg ttttagttg tgtttacgc acccacttg 
      aataaatta tgaaaaagc ta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY