Status
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Gene information
General information
TC008102 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_007419.2: 5028673..5030421
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
    TC008102
    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_09896

    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: 10.0% (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 morphology
    abdominal odoriferous glands content darker - Number of animals showing the phenotype: 3 (13 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: % (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
    • >TC008102 RA
      MSVQDLQKI ISPKFTQQV INDIIKKKS GLSDICVKK 
      IELGASSKK GDSYLSNIC RFTINATGK TQEGHQESI 
      SIPVIVKYL PKNIARRKT YRSTDFFEN EIIFYEKIL 
      SAFQKFQNE AKTADKFDN IPLVLSTCC DGENDYVAM 
      QDLSFEGYT SAERGAGLD YPHTVAILQ VLARFHAVS 
      LAFKDKKPQ EFEKAATAL KETYFSERL RPWYANFQK 
      RVFVVIRDA VEKELPKEY LQKLDNVIN KDLYGLLVK 
      SCQVRGPLS VVTHGDVWV PNFLIKYEG PKLGHIKMI 
      DFQLTRYTT LVTDLAFFL FSCVDMTLI EDKFDDFIK 
      IYHQSLSES LEKFGSSHN LVTLEQINK EFLEHSIMG 
      VGMSMEALI MAQLDDDDV SDLDGIKGD QAVPLESVW 
      LIYPFKEQE KRQRIAKMV KFAADRNLI
    CDS sequence
    • >TC008102 RA
      atgtcggtc caagacttg caaaaaata atttcgccc 
      aaattcacg caacaagtc attaatgac ataataaag 
      aagaaaagt ggtttaagt gacatttgt gtgaaaaaa 
      atcgaactt ggagcttcc tcaaaaaag ggcgattcc 
      tatttgagc aacatttgt agattcaca atcaatgcc 
      actggcaaa acccaagag gggcaccaa gagtccatc 
      tcaatcccc gttattgtg aaatacctc ccaaaaaac 
      atcgcgcgg cgaaaaacc tatcgatcg actgacttt 
      ttcgaaaac gaaataatc ttctatgag aagatcttg 
      agcgccttc caaaaattt caaaatgag gccaaaact 
      gccgacaaa ttcgacaac attccgctg gttttgtcg 
      acgtgttgc gacggcgaa aacgactac gtcgcgatg 
      caagatttg agttttgag gggtacaca agtgcggag 
      cgcggcgcg ggtctcgac tacccccat acggtggct 
      attttgcaa gtcttggcc cgcttccac gccgtcagt 
      cttgccttc aaagacaag aagccccaa gagtttgaa 
      aaggcggca acggcactt aaagagacg tatttttcc 
      gagaggctg cgcccctgg tacgccaac ttccagaag 
      cgggttttc gttgtgata agggacgcg gttgagaag 
      gagcttcca aaggagtat ttacaaaaa ctggataat 
      gtgataaac aaggatttg tacggcttg ttggtcaag 
      tcttgccag gtcaggggg cccctctcg gttgtcacg 
      catggcgac gtttgggtg cccaatttc ctgattaaa 
      tacgagggc cccaaactg gggcacatc aaaatgatt 
      gatttccaa ttgaccaga tacacgact ctggtcact 
      gatttggca ttttttttg ttttcttgt gttgatatg 
      actctgatt gaggacaaa tttgacgat tttatcaaa 
      atttatcac cagagcctc agtgagagt ttggaaaag 
      tttggctca agtcacaat ttagtgact ttggagcag 
      ataaataag gaatttttg gagcacagt attatgggt 
      gttggtatg tctatggag gctctcatt atggctcaa 
      ttggatgat gacgatgtg agtgacctg gacggtata 
      aagggtgac caagctgtt ccacttgag agtgtttgg 
      ctgatttac ccattcaag gagcaggaa aagaggcaa 
      aggatcgca aaaatggtc aaattcgcc gccgatcga 
      aacctcatc tag
    mRNA sequence
    • >TC008102 RA
      gctccacaa cataaaaga agaatcaag cactgaatt 
      cgtctataa tcaaaatca tgtcggtcc aagacttgc 
      aaaaaataa tttcgccca aattcacgc aacaagtca 
      ttaatgaca taataaaga agaaaagtg gtttaagtg 
      acatttgtg tgaaaaaaa tcgaacttg gagcttcct 
      caaaaaagg gcgattcct atttgagca acatttgta 
      gattcacaa tcaatgcca ctggcaaaa cccaagagg 
      ggcaccaag agtccatct caatccccg ttattgtga 
      aatacctcc caaaaaaca tcgcgcggc gaaaaacct 
      atcgatcga ctgactttt tcgaaaacg aaataatct 
      tctatgaga agatcttga gcgccttcc aaaaatttc 
      aaaatgagg ccaaaactg ccgacaaat tcgacaaca 
      ttccgctgg ttttgtcga cgtgttgcg acggcgaaa 
      acgactacg tcgcgatgc aagatttga gttttgagg 
      ggtacacaa gtgcggagc gcggcgcgg gtctcgact 
      acccccata cggtggcta ttttgcaag tcttggccc 
      gcttccacg ccgtcagtc ttgccttca aagacaaga 
      agccccaag agtttgaaa aggcggcaa cggcactta 
      aagagacgt atttttccg agaggctgc gcccctggt 
      acgccaact tccagaagc gggttttcg ttgtgataa 
      gggacgcgg ttgagaagg agcttccaa aggagtatt 
      tacaaaaac tggataatg tgataaaca aggatttgt 
      acggcttgt tggtcaagt cttgccagg tcagggggc 
      ccctctcgg ttgtcacgc atggcgacg tttgggtgc 
      ccaatttcc tgattaaat acgagggcc ccaaactgg 
      ggcacatca aaatgattg atttccaat tgaccagat 
      acacgactc tggtcactg atttggcat tttttttgt 
      tttcttgtg ttgatatga ctctgattg aggacaaat 
      ttgacgatt ttatcaaaa tttatcacc agagcctca 
      gtgagagtt tggaaaagt ttggctcaa gtcacaatt 
      tagtgactt tggagcaga taaataagg aatttttgg 
      agcacagta ttatgggtg ttggtatgt ctatggagg 
      ctctcatta tggctcaat tggatgatg acgatgtga 
      gtgacctgg acggtataa agggtgacc aagctgttc 
      cacttgaga gtgtttggc tgatttacc cattcaagg 
      agcaggaaa agaggcaaa ggatcgcaa aaatggtca 
      aattcgccg ccgatcgaa acctcatct aggtttttg 
      tgacctaaa acctaattt aaagttttt tctacaaaa 
      taaagtttt cacacactt tggggttgt ttcaatttg 
      aaaaaaaat ggaaggggt ggcgctagt tacgccgat 
      cacatgtca ctcttctga agttattta accggagtt 
      acgtttttt tatgactaa aattacgca aaaaac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY