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Gene information
General information
TC005344 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: 14247633..14251978
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
    TC005344
    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
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    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_09421

    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


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: 3 - Number of animals showing the phenotype: 2
    ovary without detectable defects - Number of animals showing the phenotype: 2
    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
    • >TC005344 RA
      MPTKPKTGH KEPLELEVG TVSEEIEVP VASEVVFRK 
      IWKIKRFHK TIAKRDLVD SPVFRCSVN GMATFWNIS 
      VRFWKGPNG KKITNPLVV CLNLTGCET EETGQARVR 
      FQFGVWDAS IKHWECCPI SSVVLNLQN TKDLLSVGY 
      KSLGILDRH LDSSKDVSI MLKLQIIQS DEEVHSLSQ 
      DMARLLLKS EDKDTLIEC AKEDESPVI KVHSWIIMA 
      RSSKLALQL QKFQDEKTP NIKYKLDLS DFQHSLVTE 
      LVRYIYTDK VDNADTHAN KLLPLSTRY QLPGLTALC 
      ERTLLESLT PSNVANILL LADQCRCEN LRKAALHYC 
      ENSEEIKES VHIGKTLAW RVMEMVNPD LFLEACESF 
      GSSSSNLDS PGTPGSWSD
    CDS sequence
    • >TC005344 RA
      atgccaact aaaccaaaa acagggcat aaagaacca 
      ctcgaactg gaggtggga actgtgtct gaagaaatc 
      gaagtcccg gtggcttcc gaagttgtc tttcggaaa 
      atatggaaa atcaagcgc ttccacaaa actatcgct 
      aaaagagat ctagttgat agtcccgtt tttcggtgc 
      tcggtcaat ggaatggcc accttttgg aacatttcg 
      gtcagattt tggaaaggg cccaatggt aaaaaaatc 
      accaaccct ttggtggtt tgcttgaat ttgactggt 
      tgcgagacg gaggagaca ggccaggca cgtgtgcgt 
      ttccagttc ggtgtttgg gacgctagt atcaagcac 
      tgggagtgt tgtcccatc tccagcgtg gtgctcaac 
      ctccaaaac accaaagac ctgctttcg gtgggctac 
      aagagcctc ggaatcctc gacagacac ttagatagt 
      tcaaaagac gtcagtatt atgcttaaa ctccagata 
      atccagagc gatgaagag gtccacagt ttatcgcaa 
      gacatggct aggttactg ctaaaatcc gaggacaaa 
      gacacgctc attgaatgt gccaaagag gacgaatct 
      ccagtcatt aaagtgcac agttggatc atcatggca 
      cgtagcagc aaactcgcc ctccaattg caaaaattc 
      caagacgag aaaacgcca aatatcaag tacaagctc 
      gacttgtcc gacttccag cacagttta gtgacggaa 
      ctagtccga tatatttac acggacaaa gttgataac 
      gctgatacg cacgctaac aaacttttg cctctgtca 
      acaagatat caactgccg gggttaaca gcgttgtgc 
      gaaagaacg ttactggag agtttgact ccgagcaat 
      gtcgctaac atcctgctt ttggccgat caatgccgc 
      tgcgaaaat ttgaggaaa gcggctttg cattattgt 
      gagaattcc gaagaaatt aaagaaagt gttcacata 
      ggtaaaact ctggcgtgg agagtcatg gaaatggtg 
      aacccggac ctcttcctc gaagcgtgc gaaagcttc 
      gggagttcg tcgagtaat ttagacagt ccgggaacc 
      ccgggctcg tggagtgat taa
    mRNA sequence
    • >TC005344 RA
      cgcgactaa atcaagacg gcgctgact gcgtgatag 
      tccagtttt gtgcgtgac gccgttaag tttatccga 
      caaaaagcg ctcgctaaa gtataaaac ttgaacagt 
      tttcaaaca aaatcattt gttattgtt gaatgaaaa 
      tgccaacta aaccaaaaa cagggcata aagaaccac 
      tcgaactgg aggtgggaa ctgtgtctg aagaaatcg 
      aagtcccgg tggcttccg aagttgtct ttcggaaaa 
      tatggaaaa tcaagcgct tccacaaaa ctatcgcta 
      aaagagatc tagttgata gtcccgttt ttcggtgct 
      cggtcaatg gaatggcca ccttttgga acatttcgg 
      tcagatttt ggaaagggc ccaatggta aaaaaatca 
      ccaaccctt tggtggttt gcttgaatt tgactggtt 
      gcgagacgg aggagacag gccaggcac gtgtgcgtt 
      tccagttcg gtgtttggg acgctagta tcaagcact 
      gggagtgtt gtcccatct ccagcgtgg tgctcaacc 
      tccaaaaca ccaaagacc tgctttcgg tgggctaca 
      agagcctcg gaatcctcg acagacact tagatagtt 
      caaaagacg tcagtatta tgcttaaac tccagataa 
      tccagagcg atgaagagg tccacagtt tatcgcaag 
      acatggcta ggttactgc taaaatccg aggacaaag 
      acacgctca ttgaatgtg ccaaagagg acgaatctc 
      cagtcatta aagtgcaca gttggatca tcatggcac 
      gtagcagca aactcgccc tccaattgc aaaaattcc 
      aagacgaga aaacgccaa atatcaagt acaagctcg 
      acttgtccg acttccagc acagtttag tgacggaac 
      tagtccgat atatttaca cggacaaag ttgataacg 
      ctgatacgc acgctaaca aacttttgc ctctgtcaa 
      caagatatc aactgccgg ggttaacag cgttgtgcg 
      aaagaacgt tactggaga gtttgactc cgagcaatg 
      tcgctaaca tcctgcttt tggccgatc aatgccgct 
      gcgaaaatt tgaggaaag cggctttgc attattgtg 
      agaattccg aagaaatta aagaaagtg ttcacatag 
      gtaaaactc tggcgtgga gagtcatgg aaatggtga 
      acccggacc tcttcctcg aagcgtgcg aaagcttcg 
      ggagttcgt cgagtaatt tagacagtc cgggaaccc 
      cgggctcgt ggagtgatt aagcactag ttaatttat 
      atgctcatt aagtacaaa ttggaattt atctgaaga 
      gatctgtgt tatttatta tatgtaaaa cgatgtgat 
      tgtattgca atttaattt gttacgatg gctgtattt 
      aaacaattc actattttg taattttta tatcgcttt 
      gttatgctg agatgttat attaacaat ctttaagtg 
      acatgttag gcttttgtc aagtataat tgcaaatgt 
      attgcacga tctagctaa gtattatta ttattatgt 
      aatgttaca ttaaataaa tcttaaaat aaaga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY