Status
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Gene information
General information
TC008164 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: 5985268..5989292
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
    TC008164
    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_07285

    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: 20.0% (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


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    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): more than 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%
    larva segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larva everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva dorsal partiallynot fused - Penetrance (percentage of animals/eggs on slide): less than 30%
    head mostly not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    antenna present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    maxilla present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax segment symmetry irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    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: % (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
    • >TC008164 RA
      MGQTLSEPV TAKNTACCQ NANFQVGSS SMQGWRINM 
      EDSHTHILS LPDDPEAAF FAVYDGHGG SKISEYAGK 
      HLHKFITNR EEYKNGQIE EGLKQAFLE IDRVMLEDE 
      SLRNEQSGS TAVTIIIKN GTLYCANVG DSRAVASIG 
      GKAEPLSND HKPNNKEEY DRIVAAGGF VDYNRVNGN 
      LALSRALGD FIFKRNEDK PQEEQIVTA YPEVQSYEI 
      TPEWEFVVV ACDGIWDVM SNEEVVSFV RTRIASGME 
      PEEICESLM MICLAPDCQ MAGLGCDNM TVVIIGLLQ 
      GESYEQLSA KCARTYISD DKEENFLL
    CDS sequence
    • >TC008164 RA
      atgggtcaa actttgtcc gaaccggtg actgccaag 
      aacacagca tgctgccaa aacgccaat ttccaagtg 
      ggctcaagt tcgatgcag ggctggcgc atcaacatg 
      gaggactcc catacgcac atcttgtcc ctgccggac 
      gaccccgag gccgcgttt ttcgcggtc tacgacggg 
      catgggggc tccaagatc tcggagtac gcgggcaag 
      cacctgcac aagtttatc acgaaccgg gaggagtac 
      aagaacggc cagatcgag gaggggctg aagcaggcc 
      ttcttggag atcgaccgg gtcatgctg gaggatgag 
      tcgttgaga aacgagcag tcgggctcc acagccgtc 
      actattatt atcaaaaat ggcacgttg tactgcgcc 
      aacgtgggg gactctaga gctgtggcg agcattggg 
      ggcaaggcg gagccgctt tcgaacgac cacaagccg 
      aacaacaag gaggagtac gacaggatc gtagcggcg 
      ggagggttt gttgattac aacagggtt aacgggaac 
      ttggccctt tccagggcc ctcggtgat tttattttc 
      aaaagaaac gaggataaa ccccaggag gaacaaatc 
      gttacagcg tatccggag gtgcagtcg tacgagata 
      acccccgag tgggagttt gtggtggtg gcgtgtgac 
      ggcatctgg gatgtgatg agtaacgaa gaggtggtc 
      tcgtttgtg cggacccgg atagcgtca ggaatggaa 
      ccggaagag atatgtgaa agcctaatg atgatttgt 
      ttagcaccc gattgtcaa atggcaggt ctaggatgt 
      gataatatg actgttgtt attattgga cttctacaa 
      ggtgaatcg tacgaacag ctttcggcg aaatgtgct 
      agaacttat atttcggat gataaggaa gagaacttc 
      ctcctgtga
    mRNA sequence
    • >TC008164 RA
      agattgtaa aatcaaatc gtaatttaa ttagtaata 
      agtaacaac gaatttatt gtcaatagt ttttatttg 
      aagaacgtg ccgcacatt tttattgtt taggacata 
      aaaaagttt tcggccttg tgcacaggc gatgacgca 
      ctcagccgg ccgcgtccc agctcgaca ttcaaacgt 
      caagtttct cttttttcg aagagttct ctcccgatt 
      aacctaaat attgcgttc catatctcg tgacacaca 
      acagcaaaa agcggtgtt aattagcgt acgcaaaat 
      atgcgattc gatttagca caagtatgc taaataaaa 
      cccatccaa agagcagag ttcaatttt gagggtact 
      atgggtcaa actttgtcc gaaccggtg actgccaag 
      aacacagca tgctgccaa aacgccaat ttccaagtg 
      ggctcaagt tcgatgcag ggctggcgc atcaacatg 
      gaggactcc catacgcac atcttgtcc ctgccggac 
      gaccccgag gccgcgttt ttcgcggtc tacgacggg 
      catgggggc tccaagatc tcggagtac gcgggcaag 
      cacctgcac aagtttatc acgaaccgg gaggagtac 
      aagaacggc cagatcgag gaggggctg aagcaggcc 
      ttcttggag atcgaccgg gtcatgctg gaggatgag 
      tcgttgaga aacgagcag tcgggctcc acagccgtc 
      actattatt atcaaaaat ggcacgttg tactgcgcc 
      aacgtgggg gactctaga gctgtggcg agcattggg 
      ggcaaggcg gagccgctt tcgaacgac cacaagccg 
      aacaacaag gaggagtac gacaggatc gtagcggcg 
      ggagggttt gttgattac aacagggtt aacgggaac 
      ttggccctt tccagggcc ctcggtgat tttattttc 
      aaaagaaac gaggataaa ccccaggag gaacaaatc 
      gttacagcg tatccggag gtgcagtcg tacgagata 
      acccccgag tgggagttt gtggtggtg gcgtgtgac 
      ggcatctgg gatgtgatg agtaacgaa gaggtggtc 
      tcgtttgtg cggacccgg atagcgtca ggaatggaa 
      ccggaagag atatgtgaa agcctaatg atgatttgt 
      ttagcaccc gattgtcaa atggcaggt ctaggatgt 
      gataatatg actgttgtt attattgga cttctacaa 
      ggtgaatcg tacgaacag ctttcggcg aaatgtgct 
      agaacttat atttcggat gataaggaa gagaacttc 
      ctcctgtga acaatgtgc agattatac tttctaaat 
      gtattttta atgtgtaaa taaacttgt aaatatcgt 
      ctaggacgt gtttgcttc ggtttgtag gtaaggtga 
      gtaggtttg tgatagtga tttctacca aaattcatg 
      tttttttta gaagactgt tatgtagat agtggagta 
      tagatagaa attataatt agatcagca ccgaattat 
      ttttaacat tcacatttc gagtaggtt tagtgccaa 
      ttaaatcaa gtttttttt gttgaaggt tgattgtaa 
      atgcatcat atggaataa atctttatt atcattaat 
      acaataagt ctatgctaa tgacattac ttattacgt 
      acaaaaaca ataagacat attggagga taaaatgat 
      agagtctta cgattggca taatattgt aatgtatga 
      aacgttaaa aatttgttg aaataaata attataaat 
      taactcatt ctttttttt tgccgactc ccttcatta 
      aagtcaagc aaaaagtaa agccaataa caatacaac 
      tcattttcg ccgctactt atacaaaaa taacgtgta 
      tttacacag taaaatcaa aataaacta aaaaaatga 
      aaaaattct ttggacaaa aatcagtga tatcgtatc 
      aactatcct ttttttagg tatataaat aaagtgtgg 
      tatttatac aatgtacaa ctggcattt atccaaatt 
      attacgata ttgcctatt ctaacacgt gtaatattt 
      tcattaaaa ttgcagttg aaacgatta agctcttgc 
      cttttatat cttaatttg caacaacta aacttagta 
      atcttaatt cgatattat cgtattaga ttgcaatac 
      acgttttaa caactactc tttctaatg gcaaataaa 
      aaaacgttt cacttgatt taaaacgtg tataaaata 
      taacttttt caaaatgca aaataatac acattcatt 
      cataagaac acgactcct aaaactagg tccctatgt 
      acaatgatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY