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Gene information
General information
TC006375 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_007423.3: 8141941..8143932
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
    TC006375
    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
    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
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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_04125

    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)

    adult lethality - Number of animals showing the phenotype: 6 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 4 (11 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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006375 RA
      MPIENLEDQ GLEKNPDLE LAHCKFLLT LPEYRNDRF 
      VHQKITDAI KKDDMAPWY ELIIKDCGW KKDANFLKT 
      IQAKNAEEI KKLDAAIED AEKNLGEME VREAYLKKA 
      EYYSRIGDK DNAVATFRQ TYDKTVSLG HRLDIIFHL 
      IRIGLFFMD HDIITRNID KAKSLIEEG GDWDRRNRL 
      KVYQGAYCM AVRDFKTGA NLFLDTVST FTSYELMDY 
      KAFVRYTVY TSIISLPRN QLRDKVVKG SEILEVLHS 
      EAFVKDYLF SLYNCQYSE FFNNLAEVE TVLRKDYFL 
      NPHYRYYVR EMKILAYTQ LLESYRSLT LQYMAEAFG 
      VTVEFIDSE LSTFIAAGR LHCKIDRVG GIVETNRPD 
      LKNAQFNSV VKQGDLLLN RVQKLSRVI NI
    CDS sequence
    • >TC006375 RA
      atgccgatc gaaaacctg gaagaccaa ggcctggag 
      aaaaacccc gacctcgaa cttgcccat tgcaagttt 
      ttactcacc cttcccgag tacagaaac gaccgcttt 
      gtccaccaa aaaatcacc gatgccatc aaaaaagac 
      gacatggcc ccttggtac gagctcatt atcaaggac 
      tgcggctgg aaaaaagac gccaatttt ctcaaaacc 
      atccaagcg aagaacgct gaagaaatc aaaaagttg 
      gatgcggcg attgaagac gctgagaag aatttaggc 
      gagatggaa gtccgtgag gcgtatttg aagaaagcg 
      gagtattat agtcggatt ggtgataag gacaatgcc 
      gtagcgact ttccgacaa acttatgat aagacggtg 
      tctttgggg caccgtctc gatattatt ttccatcta 
      atcagaatc ggtttattc ttcatggac catgacatt 
      attactcgt aatatagac aaagcgaaa agtttaatt 
      gaggaaggg ggcgattgg gacagacgt aacagactt 
      aaagtctac cagggggct tactgtatg gcagtccgt 
      gatttcaag acaggcgcc aatttattt ttagacaca 
      gtcagcact ttcacatcg tacgaatta atggattat 
      aaagctttt gtcagatac accgtttac acatcaatc 
      ataagttta ccacggaac caattgaga gacaaagtg 
      gttaaaggg tcggaaatt ctggaagtt ttacactct 
      gaagccttc gtcaaagac tacttgttt tcgttgtat 
      aattgccag tattccgaa tttttcaac aatctcgct 
      gaggttgag acagttttg cgcaaggac tacttcctc 
      aaccctcat tatcgctac tacgtccgt gagatgaaa 
      attttggca tacacccag ttattggag tcttacagg 
      tccctaact ttgcaatac atggccgaa gcgtttggt 
      gtcacagtt gaatttatc gattcggaa ttatctaca 
      tttattgca gctggaaga ttgcattgc aaaattgat 
      cgagtcggg ggaattgtc gaaacaaat cgccccgat 
      ttgaaaaat gcacagttt aattccgtt gttaaacaa 
      ggagattta ttactcaat cgtgtgcaa aaactctca 
      agagtcatt aatatataa
    mRNA sequence
    • >TC006375 RA
      cgtctccaa aaatagaca gttgtcatt ttttgtcaa 
      agttagtga cttgtgttt tccttgtct gtatttgaa 
      aaactatca aaaatgccg atcgaaaac ctggaagac 
      caaggcctg gagaaaaac cccgacctc gaacttgcc 
      cattgcaag tttttactc acccttccc gagtacaga 
      aacgaccgc tttgtccac caaaaaatc accgatgcc 
      atcaaaaaa gacgacatg gccccttgg tacgagctc 
      attatcaag gactgcggc tggaaaaaa gacgccaat 
      tttctcaaa accatccaa gcgaagaac gctgaagaa 
      atcaaaaag ttggatgcg gcgattgaa gacgctgag 
      aagaattta ggcgagatg gaagtccgt gaggcgtat 
      ttgaagaaa gcggagtat tatagtcgg attggtgat 
      aaggacaat gccgtagcg actttccga caaacttat 
      gataagacg gtgtctttg gggcaccgt ctcgatatt 
      attttccat ctaatcaga atcggttta ttcttcatg 
      gaccatgac attattact cgtaatata gacaaagcg 
      aaaagttta attgaggaa gggggcgat tgggacaga 
      cgtaacaga cttaaagtc taccagggg gcttactgt 
      atggcagtc cgtgatttc aagacaggc gccaattta 
      tttttagac acagtcagc actttcaca tcgtacgaa 
      ttaatggat tataaagct tttgtcaga tacaccgtt 
      tacacatca atcataagt ttaccacgg aaccaattg 
      agagacaaa gtggttaaa gggtcggaa attctggaa 
      gttttacac tctgaagcc ttcgtcaaa gactacttg 
      ttttcgttg tataattgc cagtattcc gaatttttc 
      aacaatctc gctgaggtt gagacagtt ttgcgcaag 
      gactacttc ctcaaccct cattatcgc tactacgtc 
      cgtgagatg aaaattttg gcatacacc cagttattg 
      gagtcttac aggtcccta actttgcaa tacatggcc 
      gaagcgttt ggtgtcaca gttgaattt atcgattcg 
      gaattatct acatttatt gcagctgga agattgcat 
      tgcaaaatt gatcgagtc gggggaatt gtcgaaaca 
      aatcgcccc gatttgaaa aatgcacag tttaattcc 
      gttgttaaa caaggagat ttattactc aatcgtgtg 
      caaaaactc tcaagagtc attaatata taattttgt 
      acttgtaat ggctagtaa taacaatta ttaatccgt 
      tagtttgta cttatttac ccttcatta attttttta 
      tttacttat tactttgtt gtgcaaaca gctttatgg 
      aataaacaa ttcaaaaaa at
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY