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Gene information
General information
TC006256 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: 5888404..5890081
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
    TC006256
    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_01022

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006256 RA
      MAFIYCNLL TPVVPAYTY IVQPLVTPT VTNQPLEMK 
      QEVKDLDVF EAEIKQEPL DDWPTVLVK EEPIEEPEK 
      CKEPENAER KVFTCSHCP YTTSWKSNL RKHIVSRHT 
      SSDQIKWLQ CSQCSYRGK TRDYLKCHL IHVHNISVK 
      WYNCPQCPF KAKIKRLLD RHLTLTHTD SEKIQWFQC 
      EQCPYKARF SANLKQHKL SKHTDASAI NWFKCDLCD 
      FKAKRKRNL RLHQLNKHT NEDKITWFC CNICEYKFK 
      RKQALKAHL TKVHSNAKK KMETREIPV FIDNQLCWR 
      RVVVEREAT EAGFKCNQC AFATCDKVL FKQHVLKAH 
      TVTEIKKED DCIVKQTFK TKDVVVMVD DVPCIKKVI 
      DCPL
    CDS sequence
    • >TC006256 RA
      atggcattt atttactgt aatttgttg acaccggtc 
      gtgcctgct tacacttac attgtgcaa cctctagta 
      acaccaact gtgacaaac caacctcta gaaatgaaa 
      caagaagtg aaagatttg gacgttttc gaagccgaa 
      atcaagcaa gaacccttg gacgactgg cccaccgtt 
      ttagtaaaa gaagaaccg attgaagaa ccagaaaag 
      tgtaaagaa ccggaaaat gctgaaaga aaagtcttc 
      acttgctcc cactgtcct tacaccacc agttggaaa 
      agcaacctc cgcaaacac atagtaagc cgtcacacc 
      tcctcggac caaatcaag tggttacag tgctcgcaa 
      tgctcgtac cgcggcaaa acccgagac tacctcaaa 
      tgtcacctc atacacgtc cacaacata tctgttaag 
      tggtataac tgtcctcag tgccccttc aaggccaaa 
      ataaaacgt ctccttgac cgtcatctc accctcacc 
      cacaccgac tcggaaaaa atccagtgg ttccaatgt 
      gaacagtgc ccttacaaa gccagattc agcgccaac 
      ttgaaacag cacaagctc agtaaacac accgatgcc 
      agcgccatc aattggttc aaatgcgac ttgtgcgat 
      tttaaggcc aaacgcaag cgaaattta cgactccat 
      caacttaac aaacacaca aacgaggac aaaatcacg 
      tggttttgt tgcaacatt tgcgaatac aagtttaag 
      aggaaacaa gcgttaaag gcacacttg acaaaagtg 
      cacagtaat gctaaaaag aagatggag actagggaa 
      ataccggtt tttattgat aaccagttg tgttggcga 
      cgagtcgtc gttgagagg gaggcgaca gaggcgggg 
      tttaaatgc aaccaatgc gcgtttgcc acgtgtgat 
      aaggttttg ttcaagcaa cacgtcttg aaggcacac 
      acagtcacg gaaatcaag aaggaagat gattgtatt 
      gtgaaacag actttcaag acgaaagac gttgtagtg 
      atggttgat gatgtccct tgtatcaaa aaagtcata 
      gattgtcca ttgtag
    mRNA sequence
    • >TC006256 RA
      atatgtaaa caagtcgcg aaaaaacga ggttatgtt 
      atgaaaatg tttatcaag atatcagta tattttaca 
      cgaaatatt tgtgcacaa tatgtgaat ttcattaaa 
      aggaaacaa acaatttgt taaataatt tgttttgac 
      aaaaaattg cgtttggtt gttgtaaaa agcagtggc 
      gtaacttgg acaagtgta agccaattt tttggtgca 
      aaaaacccg taaaaattg ttacgttgt tagattcag 
      cgaataaga atgttatgt ttcggccaa atttgcgta 
      aacgtcccg gaaattagt attttcgtg gaagttaca 
      ttgaaagtg gggttatgt agtagtcac atttggacg 
      aaattttga tgttttttt tgcgaaaat ataattaac 
      atggagttg gtttgcttc aagtaagcc aaaatgtca 
      aaataaata gcttaatta ggcagacta tttgtatat 
      ttttcttag aggcagtgg cgtaacttg aacacgtcc 
      ccaatatta tctcgtaat ttaatttaa taatcgttt 
      ttcgacaca tggcattta tttactgta atttgttga 
      caccggtcg tgcctgctt acacttaca ttgtgcaac 
      ctctagtaa caccaactg tgacaaacc aacctctag 
      aaatgaaac aagaagtga aagatttgg acgttttcg 
      aagccgaaa tcaagcaag aacccttgg acgactggc 
      ccaccgttt tagtaaaag aagaaccga ttgaagaac 
      cagaaaagt gtaaagaac cggaaaatg ctgaaagaa 
      aagtcttca cttgctccc actgtcctt acaccacca 
      gttggaaaa gcaacctcc gcaaacaca tagtaagcc 
      gtcacacct cctcggacc aaatcaagt ggttacagt 
      gctcgcaat gctcgtacc gcggcaaaa cccgagact 
      acctcaaat gtcacctca tacacgtcc acaacatat 
      ctgttaagt ggtataact gtcctcagt gccccttca 
      aggccaaaa taaaacgtc tccttgacc gtcatctca 
      ccctcaccc acaccgact cggaaaaaa tccagtggt 
      tccaatgtg aacagtgcc cttacaaag ccagattca 
      gcgccaact tgaaacagc acaagctca gtaaacaca 
      ccgatgcca gcgccatca attggttca aatgcgact 
      tgtgcgatt ttaaggcca aacgcaagc gaaatttac 
      gactccatc aacttaaca aacacacaa acgaggaca 
      aaatcacgt ggttttgtt gcaacattt gcgaataca 
      agtttaaga ggaaacaag cgttaaagg cacacttga 
      caaaagtgc acagtaatg ctaaaaaga agatggaga 
      ctagggaaa taccggttt ttattgata accagttgt 
      gttggcgac gagtcgtcg ttgagaggg aggcgacag 
      aggcggggt ttaaatgca accaatgcg cgtttgcca 
      cgtgtgata aggttttgt tcaagcaac acgtcttga 
      aggcacaca cagtcacgg aaatcaaga aggaagatg 
      attgtattg tgaaacaga ctttcaaga cgaaagacg 
      ttgtagtga tggttgatg atgtccctt gtatcaaaa 
      aagtcatag attgtccat tgtaggatt ttgtatttg 
      taaataaat aaaaaccaa atca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY