Status
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Gene information
General information
TC002398 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: 31257453..31263262
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
    TC002398
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00364

    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: 50.0% (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


    adult lethality - Number of animals showing the phenotype: 2 (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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


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


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002398 RA
      MLTPEVKPC YVLLEPVTP KANVDFSAE LKKVINERN 
      LLTSKTRKR MTEALEEIE CENEETSRR SQKENILRE 
      ILDSEENYL RQLEVIMEF FIKPVQEKM LLKSRDFDV 
      LFGDFNTIY KVNKELRQE LRKNPKNVA GAFSKIAPF 
      FKCYSFYAS GFRNSLDIL QNCHRDNQK FGKFLEMQE 
      TRPEVQSKL SALLIAPIQ RVPRYKLLL SSLLKLTNP 
      SDHDYQSLF DSLKKVEDA ANHINTIIK EQENMQRLI 
      ELQRCLING EPNVITPGR KLLKEGILF KISKTGHSQ 
      KTHVALMND IIIFCKMKK DEVKVNSLK CCGIFPLSK 
      CKIQTVYDK GAFKVVCQN EEIVLYDGS YSETVQWVE 
      EIESAIETH VNDRKTLRK ESTVRRPVK RKDLGEYNE 
      IGLSPGKKL RKRKSPFLE ESNVLSPLR VSKRRPIRE 
      TNTNLKPPS FFVTLKPRE DEDSDNNKP VSNEVFVFG 
      KPHPDQGFS FKMNQWLCG IGTSVKKML GFK
    CDS sequence
    • >TC002398 RA
      atgttgact ccggaagta aaaccttgt tacgtcctt 
      ctcgagcct gtgaccccc aaagcaaac gtcgatttt 
      agtgccgaa cttaagaaa gttatcaac gaacgcaat 
      ctcctaacc tcaaaaacc cgaaaacga atgaccgaa 
      gcccttgaa gaaattgaa tgcgaaaat gaggaaaca 
      agtcgtcgc agtcaaaag gagaatatt ttgagggaa 
      atactcgat tctgaggag aattatttg aggcagttg 
      gaggttata atggagttt ttcatcaag ccagtgcag 
      gaaaaaatg ttgctaaag tcgagagat ttcgacgtt 
      ttatttggt gattttaac acgatttat aaagttaat 
      aaagagtta aggcaagag ctgaggaaa aaccccaaa 
      aatgtggct ggggcgttc tcgaaaata gcccccttt 
      ttcaagtgt tactcgttc tacgcctca gggtttaga 
      aacagtctt gacattctc cagaattgc caccgtgac 
      aatcaaaaa tttggcaaa ttcctcgaa atgcaagag 
      acccgacct gaggtccaa tcaaaactt tcagccctt 
      ctgatagcc cccatacaa cgcgtccct cgttacaaa 
      cttctctta tcatcactc cttaaatta acaaaccca 
      tcagaccat gattatcaa agtcttttt gattcgtta 
      aaaaaagtc gaagatgca gccaatcat attaataca 
      attataaaa gaacaagaa aacatgcaa agacttatc 
      gaattacaa cgctgttta attaacggc gaaccaaat 
      gttataaca cctggtcga aaattacta aaggaaggg 
      attttgttt aaaatttcc aaaaccggt cacagtcaa 
      aaaacacac gttgcactt atgaatgat attattatt 
      ttttgcaaa atgaaaaag gacgaggtt aaggtgaat 
      tcgttgaaa tgttgcggg atttttccg ctcagtaaa 
      tgcaaaatt cagacggtt tatgataag ggggctttc 
      aaagtggtt tgtcagaat gaggagatt gttctttat 
      gatggcagt tattcagag actgttcag tgggttgag 
      gagattgaa tcagcgatt gaaacacat gttaatgat 
      cgcaaaaca ttgaggaag gaaagtact gttcggagg 
      ccggtcaag aggaaggat ttgggggaa tataacgaa 
      attggcttg agtcctggc aagaaattg aggaaacgg 
      aaatcacca tttcttgaa gaaagcaac gttttgagc 
      ccgttgaga gtttcaaaa aggcgccca atcagagaa 
      acgaatacg aatctcaag cctccttcg ttttttgta 
      acgttgaaa ccacgagaa gatgaagac agtgataat 
      aataagcca gtgtctaat gaagttttc gtgtttgga 
      aaaccgcat ccagatcag ggattttcg ttcaagatg 
      aatcaatgg ttgtgtggg attggcacc tctgttaaa 
      aaaatgtta ggttttaaa taa
    mRNA sequence
    • >TC002398 RA
      cagatgtcg ccaccatac ctccaaaaa aaaccgttt 
      attttttga attttaatt tgcaaaaaa accggaaaa 
      atgttgact ccggaagta aaaccttgt tacgtcctt 
      ctcgagcct gtgaccccc aaagcaaac gtcgatttt 
      agtgccgaa cttaagaaa gttatcaac gaacgcaat 
      ctcctaacc tcaaaaacc cgaaaacga atgaccgaa 
      gcccttgaa gaaattgaa tgcgaaaat gaggaaaca 
      agtcgtcgc agtcaaaag gagaatatt ttgagggaa 
      atactcgat tctgaggag aattatttg aggcagttg 
      gaggttata atggagttt ttcatcaag ccagtgcag 
      gaaaaaatg ttgctaaag tcgagagat ttcgacgtt 
      ttatttggt gattttaac acgatttat aaagttaat 
      aaagagtta aggcaagag ctgaggaaa aaccccaaa 
      aatgtggct ggggcgttc tcgaaaata gcccccttt 
      ttcaagtgt tactcgttc tacgcctca gggtttaga 
      aacagtctt gacattctc cagaattgc caccgtgac 
      aatcaaaaa tttggcaaa ttcctcgaa atgcaagag 
      acccgacct gaggtccaa tcaaaactt tcagccctt 
      ctgatagcc cccatacaa cgcgtccct cgttacaaa 
      cttctctta tcatcactc cttaaatta acaaaccca 
      tcagaccat gattatcaa agtcttttt gattcgtta 
      aaaaaagtc gaagatgca gccaatcat attaataca 
      attataaaa gaacaagaa aacatgcaa agacttatc 
      gaattacaa cgctgttta attaacggc gaaccaaat 
      gttataaca cctggtcga aaattacta aaggaaggg 
      attttgttt aaaatttcc aaaaccggt cacagtcaa 
      aaaacacac gttgcactt atgaatgat attattatt 
      ttttgcaaa atgaaaaag gacgaggtt aaggtgaat 
      tcgttgaaa tgttgcggg atttttccg ctcagtaaa 
      tgcaaaatt cagacggtt tatgataag ggggctttc 
      aaagtggtt tgtcagaat gaggagatt gttctttat 
      gatggcagt tattcagag actgttcag tgggttgag 
      gagattgaa tcagcgatt gaaacacat gttaatgat 
      cgcaaaaca ttgaggaag gaaagtact gttcggagg 
      ccggtcaag aggaaggat ttgggggaa tataacgaa 
      attggcttg agtcctggc aagaaattg aggaaacgg 
      aaatcacca tttcttgaa gaaagcaac gttttgagc 
      ccgttgaga gtttcaaaa aggcgccca atcagagaa 
      acgaatacg aatctcaag cctccttcg ttttttgta 
      acgttgaaa ccacgagaa gatgaagac agtgataat 
      aataagcca gtgtctaat gaagttttc gtgtttgga 
      aaaccgcat ccagatcag ggattttcg ttcaagatg 
      aatcaatgg ttgtgtggg attggcacc tctgttaaa 
      aaaatgtta ggttttaaa taagttttt taaaatatt 
      aagccgagt tgtaattta tttaatttg taaagtttt 
      aaatcgttt tttaataag gaattacaa gtttagggg 
      agttgtggc ggtaaggtt ggcagcagt ggaagtcac 
      taggtgcct atgttcccg cgttcggtt ggcgtcggt 
      tttgttatg cgctttgtt tttgggtgt tttttaaaa 
      attttctcg ttttctttt gtcttaata ctcttgtga 
      tagtgttgg acagaaaaa ccctgatgt agttagtgc 
      ccagaagtg aagaaacaa tgatttagt ccgattcca 
      cagcctcct gttgctcaa tcctgttta ctccttttc 
      tccagtgcc ccaggtcag tttttcctt tataaaatc 
      ctcaaatac aaaaacaac tgttttttt aataatgaa 
      attaaactg cggacgcta ttttacacg ctgtgaact 
      tttttttta ttattttaa cccaagcgt gggtcgcca 
      ttgtgttta ttaaatttg agacgttca a
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