Status
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Gene information
General information
TC001600 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_007416.3: 1189344..1192486
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
    TC001600
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00268

    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: 100.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 8 (9 dpi)
    Days post injection


    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: 90.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 90.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 7 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC001600 RA
      MSTSGDFGN PLRKFKLVF LGEQSVGKT 
      SLITRFMYD SFDNTYQAT IGIDFLSKT 
      MYLEDRTVR LQLWDTAGQ ERFRSLIPS 
      YIRDSTVAV VVYDITNAN SFHQTSKWI 
      DDVRTERGS DVIIMLVGN KTDLSDKRQ 
      VSTEEGERK AKELNVMFI ETSAKAGYN 
      VKQLFRRVA AALPGMDST ENKPPEDMQ 
      EVVLKDTPN EVKDPDGGC AC
    CDS sequence
    • >TC001600 RA
      atgtcgacg tcaggagac tttggtaat cccttgcga 
      aaatttaaa ctagttttc ttaggagaa caaagtgtt 
      ggcaaaacg tcgctaata acaaggttt atgtacgac 
      agcttcgat aacacctac caggcgact ataggaatt 
      gatttctta tcaaaaaca atgtacctc gaggacagg 
      accgtacgg ttgcagttg tgggacaca gccggccag 
      gagcgattt aggtcgtta ataccctcg tacattcgt 
      gattcgacc gttgctgtc gtagtttat gacataaca 
      aatgccaac tcctttcat caaacttct aaatggatc 
      gacgacgtg cggacggag cgaggcagc gacgttatt 
      ataatgctc gtcggcaat aaaacagac ctttctgac 
      aaaaggcag gtcagcacg gaggaaggc gagcggaag 
      gcgaaggag ctgaacgtc atgtttatt gaaactagt 
      gcgaaagct ggatataat gttaaacag ttgtttaga 
      cgtgtggcc gccgcgctg ccggggatg gactcgacg 
      gaaaacaaa ccaccagaa gacatgcaa gaggtcgtg 
      ttaaaagac acaccgaac gaagttaaa gacccagac 
      ggaggctgt gcatgctaa
    mRNA sequence
    • >TC001600 RA
      ccgatttgt tttttcgcg caaagtgcg ggtggatta 
      aatgggctt ttttgcggg ttagtttca cgaatcgga 
      tcagttttt tggggcctg attattagt ccaatgtaa 
      aatatttat gattttaat ttttttggt cactcccaa 
      atgtaacat gcgcagtgt tgcagtcac ttcgagtcg 
      ctaccgtgg cgtattctg tcattggtt tagtcggta 
      cagttcgtt ttcctgtga tattttact gtgaaattc 
      gcaatttgc agggttttt aaaagaatc gttaagttt 
      ttaacaaaa atgtcgacg tcaggagac tttggtaat 
      cccttgcga aaatttaaa ctagttttc ttaggagaa 
      caaagtgtt ggcaaaacg tcgctaata acaaggttt 
      atgtacgac agcttcgat aacacctac caggcgact 
      ataggaatt gatttctta tcaaaaaca atgtacctc 
      gaggacagg accgtacgg ttgcagttg tgggacaca 
      gccggccag gagcgattt aggtcgtta ataccctcg 
      tacattcgt gattcgacc gttgctgtc gtagtttat 
      gacataaca aatgccaac tcctttcat caaacttct 
      aaatggatc gacgacgtg cggacggag cgaggcagc 
      gacgttatt ataatgctc gtcggcaat aaaacagac 
      ctttctgac aaaaggcag gtcagcacg gaggaaggc 
      gagcggaag gcgaaggag ctgaacgtc atgtttatt 
      gaaactagt gcgaaagct ggatataat gttaaacag 
      ttgtttaga cgtgtggcc gccgcgctg ccggggatg 
      gactcgacg gaaaacaaa ccaccagaa gacatgcaa 
      gaggtcgtg ttaaaagac acaccgaac gaagttaaa 
      gacccagac ggaggctgt gcatgctaa acaactttt 
      ttacttatc aatatttgt gtagacctt acaaatatg 
      acaaattct ggagcgact gaccataag ttgtacata 
      ttgtcgaat cggggtttg tcctcttaa ttaaagtat 
      tgccttaat tgcttagaa actatcgta atattattt 
      atgtgtaaa atataattg gtttagata ttcttcgtt 
      acatttatc gatcagttt tattcagtt gatacaacg 
      tttactaat atggtgctt atttacaaa ctaatcgag 
      aaggacgcc gtttatttg gctcaatta tcggacatt 
      catgaaaca tatcacata gtttaagcc attgataat 
      cggttcaaa taaatgttg actgtcgcc gtgcctgag 
      caaatcaaa ccaactcat cggtttatg tgtcgacct 
      gcaatatga tatccacga tattatgta agctcaatt 
      tgtgatgac gaaattagt gttagcaca ttccttcaa 
      actgcggat aaatcattt tagtgtcat aacgcacaa 
      tgagattgg cccagcttt aatccatta cagagaaca 
      gcttgcatg ttagtccgc tgcttgcta attagttcc 
      ttctgtaca tattgaccc agcaatatt ggatgttta 
      tactttttt taatatagt aaaacggtg tgtaatctt 
      aattgcatt ctcaatcca ggggctagt cgcagacga 
      gctccaaat gggtacaaa gcggtgcga ttagtttta 
      ggtttattg tagtaattt attgacaag catttaata 
      aagtttttc gtaatgtgg attgtatga tttgcctca 
      gcatgattg tagtgcatg tgcgagtct ggccaggtt 
      ttccttaac aacggcgca gcggtggac ttacaaacg 
      cagcctcag cttcaaaac gaccaacat gactcagaa 
      gggggctgt atgtgctga aaacctaga tctaattgt 
      tcaacaaac caatttagt ttaactaac aaccaaagt 
      agcctctgc ctatgttga cgttgaaaa gctataagt 
      gtgacttta tttgcaatt ggcacttta tgtgtggca 
      tggaacatc caccgttac aattaattg catttcatg 
      taacaagac tttaaactg tgtacgagg tgatctctc 
      atttttcta tcaaatcat tttgcttat tcttttctt 
      gtcggtttt aagctcaat cgtgttaac atatatgga 
      catgtaaat caaattata gcttggcat tgatgatgt 
      atcattgca cttaatatt acaataatt acaaaagtc 
      tgatgtaca taaaccctc atttcggga tgctatggc 
      aacttcctc agctgacat tctgtttgt tacgttgtt 
      atgtaccat tcagttttt atcaaaaat aaatacatt 
      ttaaaaag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY