Status
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Gene information
General information
TC010170 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_007422.5: 13657853..13662141
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
    TC010170
    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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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04776

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    head appendages sometimes shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head appendages random not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010170 RA
      MSSSFGTDY GDKLSFIAE WFDFDSAYQ KRLLLNYYP 
      VDSTVELYD IDLKRPFLK RSFYECISR DDVFVGNKV 
      RIYDRQLKI VDYADCRTK TIIGNTRQH TFGVIKVSV 
      IDKIGEIFN QIQDRHFEI INVRMCRLK QAECLELYD 
      HLRGSAFLP FVVDHMTSG PVVALQLVG DNAIERWKA 
      NVGPTDPLE ARQTAPDTL RAIYGLEKA SNAFHAADN 
      CDAVTKKLN LFFPSDPGL RPPETTLQL QNSTCCVIK 
      PHAISEGKL GYIISFITD AKFKITAMQ TFYFSNANA 
      EEFLEVYKG VVSDFHALL MSFLDGPCI GLEISGKSE 
      DVGDVHGEF RKFCGPNDP EVARQIRPN TLRARFGLD 
      KYKNAVHCT DLKEDTELE LEYLFKILS
    CDS sequence
    • >TC010170 RA
      atgtcatca tcgttcggc accgattac ggtgataaa 
      ttatcgttc atagccgaa tggttcgac ttcgattcg 
      gcctaccag aagcgactg ctcctgaat tactacccc 
      gtcgatagc acggtcgag ctctacgac atcgacctc 
      aagcgcccc ttcctcaag cgctccttc tacgagtgc 
      atcagccgc gacgacgtc ttcgtgggc aacaaggtc 
      cgcatctac gaccgccag ttaaaaatc gtcgattat 
      gccgattgc cgcaccaaa acaatcatc ggcaacacg 
      cgccagcac accttcggc gtgatcaaa gtcagcgtc 
      atcgacaaa atcggcgag attttcaac caaatccag 
      gaccgccac ttcgaaatc atcaacgtg cggatgtgc 
      cgcttgaag caggccgaa tgcttggag ctgtacgac 
      cacctccgc ggctccgct ttcctgccc ttcgtggtg 
      gaccacatg acctcgggc cctgtggtg gcgctccag 
      ctggtaggg gacaacgcc atcgagcgc tggaaggcc 
      aacgtgggc cccaccgac cccctggag gcgcgccaa 
      accgccccc gacaccctc cgggccatc tacggcctg 
      gagaaggcc tccaacgcg ttccacgcc gccgataat 
      tgcgacgcc gtcacgaaa aagctcaac ttgttcttt 
      ccctccgat ccggggctg cgccccccc gaaaccacc 
      ctccagctc cagaacagc acttgttgc gtcatcaag 
      ccgcacgcc atcagcgag gggaagttg ggctacatt 
      atcagcttc ataacggat gccaagttc aaaattacg 
      gcgatgcaa acgttttac ttcagtaat gccaacgct 
      gaggagttt ctggaggtg tataagggg gttgtgagc 
      gattttcac gccttgctg atgagtttt ttggacggg 
      ccgtgcata gggttggag atttccggg aagagcgag 
      gatgtgggg gatgtgcat ggggagttt cggaagttt 
      tgtggcccg aatgaccca gaagttgca aggcagatt 
      aggccgaat acgctgagg gccaggttt gggctagat 
      aagtacaaa aatgcagtg cactgcacg gatttgaag 
      gaggacact gaactggaa ttggagtat ttgtttaaa 
      atattaagc tga
    mRNA sequence
    • >TC010170 RA
      aagttcagg aaatggaat gaaatgcgt ttgatacca 
      aataacgca ctttatcga aattcgttt ttaaataac 
      tttttcagc agtctgagc gtaaatggg tttggtttc 
      agaagccgc tggggagca aatcgagtc acttaccgg 
      tacagatgg taaatccag gttccggag gctggagtt 
      ggttgcaaa agcacaaca cgaagacga cttcgtata 
      gctggtggc ctacgttat atagcacct gtggacgcg 
      gcgggcgca gccacttta cgctgccac tcaggtttc 
      gggggcggc ttcagtaaa tccgacaat gtcatcatc 
      gttcggcac cgattacgg tgataaatt atcgttcat 
      agccgaatg gttcgactt cgattcggc ctaccagaa 
      gcgactgct cctgaatta ctaccccgt cgatagcac 
      ggtcgagct ctacgacat cgacctcaa gcgcccctt 
      cctcaagcg ctccttcta cgagtgcat cagccgcga 
      cgacgtctt cgtgggcaa caaggtccg catctacga 
      ccgccagtt aaaaatcgt cgattatgc cgattgccg 
      caccaaaac aatcatcgg caacacgcg ccagcacac 
      cttcggcgt gatcaaagt cagcgtcat cgacaaaat 
      cggcgagat tttcaacca aatccagga ccgccactt 
      cgaaatcat caacgtgcg gatgtgccg cttgaagca 
      ggccgaatg cttggagct gtacgacca cctccgcgg 
      ctccgcttt cctgccctt cgtggtgga ccacatgac 
      ctcgggccc tgtggtggc gctccagct ggtagggga 
      caacgccat cgagcgctg gaaggccaa cgtgggccc 
      caccgaccc cctggaggc gcgccaaac cgcccccga 
      caccctccg ggccatcta cggcctgga gaaggcctc 
      caacgcgtt ccacgccgc cgataattg cgacgccgt 
      cacgaaaaa gctcaactt gttctttcc ctccgatcc 
      ggggctgcg cccccccga aaccaccct ccagctcca 
      gaacagcac ttgttgcgt catcaagcc gcacgccat 
      cagcgaggg gaagttggg ctacattat cagcttcat 
      aacggatgc caagttcaa aattacggc gatgcaaac 
      gttttactt cagtaatgc caacgctga ggagtttct 
      ggaggtgta taagggggt tgtgagcga ttttcacgc 
      cttgctgat gagtttttt ggacgggcc gtgcatagg 
      gttggagat ttccgggaa gagcgagga tgtggggga 
      tgtgcatgg ggagtttcg gaagttttg tggcccgaa 
      tgacccaga agttgcaag gcagattag gccgaatac 
      gctgagggc caggtttgg gctagataa gtacaaaaa 
      tgcagtgca ctgcacgga tttgaagga ggacactga 
      actggaatt ggagtattt gtttaaaat attaagctg 
      actatcaca ataaagaga tattttgca a
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY