Status
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Gene information
General information
TC030877 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_007418.3: 658443..686272
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
    TC030877
    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_06072

    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: 40.0% (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 lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 leg musculature mostly not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

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

    leg musculature proximal partiallynot present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    legs partially sometimesdarker - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: The same defect had been obseverd in muscle prep.
    legs femur sometimes size increased - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030877 RA
      MIDDTTCRF LFVLAIFAL IPQSILAER HRKRDLRSR 
      GTVIYAETD CPYPCTCPV MGQEVCREC EECPRQLGE 
      PCSEDRPCD RQRGLVCRY KHGDSEGVC RESTGVPCI 
      VHNKTYEHG ETFSLDCRT QCACQNGTY GCSSLCPQE 
      HISPRGNCQ HPRLVDVPE QCCREWMCD SQTAEQPPA 
      CQPAFSRWS SCSSDCGAG LSSRRSNLN ARCLPDTEI 
      RICQTRRCQ EAAPTVHHK NQHHLRRGH ECKATHRLS 
      SGVFLRFGP CRSRKRFRP KYCGLCPIP GMQCAPSLS 
      TTVKVEFVC DGPQPDETT SDLLPEYLE PGEDFWEDA 
      SPWKGDNKI SRLITVSVQ WVLKCRCEP EDHEPTSST 
      GEVILHRVH RTAAP
    CDS sequence
    • >TC030877 RA
      atgatcgac gatacaaca tgtcgtttc ctcttcgtt 
      ctggccatc tttgcctta atccctcaa agcattttg 
      gccgagcga catcgcaag cgagatttg cgatctcgt 
      ggaacagtt atttacgct gaaacggac tgcccttat 
      ccttgcacg tgtcctgtg atgggccag gaagtgtgt 
      agggagtgt gaggagtgc ccaagacag ctgggcgag 
      ccctgcagt gaggatagg ccctgtgat aggcaacga 
      gggcttgtg tgtcgatac aaacatggc gattctgaa 
      ggtgtctgc agagaatca actggggtg ccatgtatc 
      gtgcacaac aagacctac gagcacggt gagacattt 
      tctctggac tgtcgcact caatgcgct tgtcagaat 
      gggacgtat gggtgctcc tctttgtgc ccccaagag 
      cacatttca ccccgtggt aactgccag catccccgt 
      ttggtggat gttcctgag cagtgctgt cgcgagtgg 
      atgtgcgat agccaaact gcagagcaa cccccggcc 
      tgccagccg gccttctcc aggtggtcc agctgcagc 
      agcgactgc ggagccggc ctgtcctcc aggaggtcc 
      aacttgaac gcgcgctgt cttccagac acggaaatt 
      aggatatgc cagacgagg cggtgccag gaggccgct 
      ccaaccgtt catcacaag aaccaacac catctcagg 
      cggggccac gaatgcaag gccacccac cgcctcagc 
      agcggcgta ttcctccgt ttcgggcct tgccgcagc 
      cggaaacgc ttccggccg aaatactgc ggcttgtgc 
      cccatccct gggatgcag tgcgccccc tcattgagc 
      accaccgtc aaggtggag tttgtctgc gatggacca 
      caacccgac gaaaccact tccgatctc ctgcctgag 
      tatctcgaa cctggggaa gatttctgg gaggatgcg 
      agtccatgg aagggtgat aataaaatt tcccggttg 
      ataacagtg tcagtccag tgggtgttg aagtgccgc 
      tgtgaacca gaggaccac gaaccgacc tcgagtacg 
      ggcgaggtg attctgcac cgagtccat cggactgcc 
      gcgccgtga
    mRNA sequence
    • >TC030877 RA
      ttgcaccac aggaaatga ccagtgtct aactaaacc 
      aacaacatg atcgacgat acaacatgt cgtttcctc 
      ttcgttctg gccatcttt gccttaatc cctcaaagc 
      attttggcc gagcgacat cgcaagcga gatttgcga 
      tctcgtgga acagttatt tacgctgaa acggactgc 
      ccttatcct tgcacgtgt cctgtgatg ggccaggaa 
      gtgtgtagg gagtgtgag gagtgccca agacagctg 
      ggcgagccc tgcagtgag gataggccc tgtgatagg 
      caacgaggg cttgtgtgt cgatacaaa catggcgat 
      tctgaaggt gtctgcaga gaatcaact ggggtgcca 
      tgtatcgtg cacaacaag acctacgag cacggtgag 
      acattttct ctggactgt cgcactcaa tgcgcttgt 
      cagaatggg acgtatggg tgctcctct ttgtgcccc 
      caagagcac atttcaccc cgtggtaac tgccagcat 
      ccccgtttg gtggatgtt cctgagcag tgctgtcgc 
      gagtggatg tgcgatagc caaactgca gagcaaccc 
      ccggcctgc cagccggcc ttctccagg tggtccagc 
      tgcagcagc gactgcgga gccggcctg tcctccagg 
      aggtccaac ttgaacgcg cgctgtctt ccagacacg 
      gaaattagg atatgccag acgaggcgg tgccaggag 
      gccgctcca accgttcat cacaagaac caacaccat 
      ctcaggcgg ggccacgaa tgcaaggcc acccaccgc 
      ctcagcagc ggcgtattc ctccgtttc gggccttgc 
      cgcagccgg aaacgcttc cggccgaaa tactgcggc 
      ttgtgcccc atccctggg atgcagtgc gccccctca 
      ttgagcacc accgtcaag gtggagttt gtctgcgat 
      ggaccacaa cccgacgaa accacttcc gatctcctg 
      cctgagtat ctcgaacct ggggaagat ttctgggag 
      gatgcgagt ccatggaag ggtgataat aaaatttcc 
      cggttgata acagtgtca gtccagtgg gtgttgaag 
      tgccgctgt gaaccagag gaccacgaa ccgacctcg 
      agtacgggc gaggtgatt ctgcaccga gtccatcgg 
      actgccgcg ccgtgagca catatccaa gtctttcag 
      gaggaccaa tttttgtta gagttgttt gtgtgttga 
      ttggtgtgg taggcttgc ggtctggac tactttttt 
      gtgatattt caattttta ttttggtgg agctttcgg 
      ataaccgag gctctattg gatacacgg gcgccgact 
      atatagaaa tttggttgc tgctttcat tgaagtcag 
      aattttcca agtatatta tttaaaata acctaaatt 
      tacaacgag tcaactttt tttacaaac ctttttttt 
      ttcttttta agtcaaaaa tatcttttc ttcattttg 
      ggatgtttg aaaaatttt attgtctaa atcagctta 
      ctgatgttt tacctgatt tgacttgac ttgacttga 
      cttgacctg acttgattt tttcgatac tatattttt 
      tgtcattgt ttcaaatgc taattataa tttttggtt 
      agatttaaa aaattctat ctacaaata aaattttca 
      caaaaca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY