Status
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Gene information
General information
TC002540 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: 24021409..24027168
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
    TC002540
    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_00399

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 4 (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: 60.0% (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: 6 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 4 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002540 RA
      MATQPHSRK RVCYYYDSD IGNYYYGQG HPMKPHRIR 
      MTHNLLLNY GLYRKMEIY RPHKATAEE MTKFHSDDY 
      IRFLRSIRP DNMSEYNKQ MQRFNVGED CPVFDGLYE 
      FCQLSAGGS VAAAVKLNK QASEICINW GGGLHHAKK 
      SEASGFCYV NDIVLGILE LLKYHQRVL YIDIDVHHG 
      DGVEEAFYT TDRVMTVSF HKYGEYFPG TGDLRDIGA 
      GKGKYYAVN IPLRDGMDD ESYEKIFVP IISKVMETF 
      QPSAVVLQC GADSLTGDR LGCFNLTVR GHGKCVEFV 
      KKYNLPFMM VGGGGYTIR NVSRAWTYE TSVALGVEI 
      ANELPYNDY FEYFGPDFK LHISPSNMA NQNTPEYLD 
      KIKTRLFEN LRMLPHAPG VQVQAIPED AINEESDGE 
      EKVDKDERL PQKDLDKRI VPENEFSDS EDEGEGGRR 
      DNRTYKGRK RPRLEKGVD GKESTGDEK IKEELKSEK 
      EEKEDSKAN TIDDLKKDT GPTP
    CDS sequence
    • >TC002540 RA
      atggccaca caacctcac agtcggaaa cgtgtttgt 
      tactattac gacagcgat attgggaat tactattat 
      gggcaagga caccccatg aagccccac cgcataagg 
      atgacccat aatttgctg ctcaattat ggtctgtac 
      agaaaaatg gagatttat cgcccccat aaagccact 
      gccgaagaa atgaccaag tttcactcg gatgactac 
      attcgattt ctcagatcc atccgacct gacaacatg 
      tctgagtac aacaaacaa atgcagagg tttaatgta 
      ggggaggac tgtcctgtc tttgacggt ttgtacgaa 
      ttctgccaa ctctcagct gggggctca gtggcggca 
      gctgttaaa ttgaacaag caagcgtcc gaaatttgc 
      atcaattgg ggcgggggt ttgcatcac gcgaaaaaa 
      tccgaagct tcgggcttt tgctacgta aatgatatt 
      gttctgggg attttggag ctgttgaag taccaccaa 
      cgcgtgttg tacatcgat attgacgtg caccacggt 
      gacggtgtc gaagaggct ttttacacc actgaccgg 
      gtgatgaca gtctcgttc cacaaatac ggcgagtac 
      ttccccgga acgggcgat ctcagagac attggcgcc 
      ggcaaaggc aagtactac gccgtcaat atccccctt 
      cgtgacggc atggacgac gaatcctac gagaagatt 
      ttcgttccg ataatcagc aaagttatg gagacgttc 
      caaccgagc gctgttgtt ctccaatgt ggtgcagac 
      tccttaact ggtgaccgc ctggggtgc ttcaacctc 
      acggtgcga ggccacggc aagtgcgtg gagttcgtc 
      aaaaagtac aaccttcca ttcatgatg gtcggaggt 
      ggtggatac accattagg aacgtctcc agagcatgg 
      acgtacgaa acttccgtc gctctaggt gtggaaatc 
      gccaacgaa ctcccttat aacgactac ttcgagtac 
      tttggtccc gattttaag ctacatatc agtccgagc 
      aatatggcc aatcagaac acccccgag tatttggat 
      aaaatcaag acgcgcttg tttgaaaat ttgaggatg 
      ttgccgcac gcaccaggt gtgcaagtt caggcgatt 
      ccagaagac gcgatcaat gaagaatcg gatggagag 
      gagaaagtt gacaaagac gagagacta cctcagaaa 
      gatctcgat aagaggatc gtgccagaa aatgaattt 
      tccgatagt gaggacgag ggagaaggg gggcgaaga 
      gacaatcgg acgtataag ggacgaaag aggccgcgg 
      cttgaaaaa ggggttgat gggaaagaa tcaacaggg 
      gatgaaaaa atcaaagaa gaactaaaa tctgaaaaa 
      gaagagaaa gaagatagt aaagcgaac acaattgat 
      gatttgaag aaagatacg ggaccaact ccgtga
    mRNA sequence
    • >TC002540 RA
      ctgcgggaa caacggtgc catttgcaa agcggcgtg 
      ttgtgctac cgccgtaat tctaataat ttaaacaaa 
      ttgttacaa agtgaacag tgatttgta ataattaaa 
      gccaaagta attaaaaac aatttagtt ttctacagt 
      acaagatgg ccacacaac ctcacagtc ggaaacgtg 
      tttgttact attacgaca gcgatattg ggaattact 
      attatgggc aaggacacc ccatgaagc cccaccgca 
      taaggatga cccataatt tgctgctca attatggtc 
      tgtacagaa aaatggaga tttatcgcc cccataaag 
      ccactgccg aagaaatga ccaagtttc actcggatg 
      actacattc gatttctca gatccatcc gacctgaca 
      acatgtctg agtacaaca aacaaatgc agaggttta 
      atgtagggg aggactgtc ctgtctttg acggtttgt 
      acgaattct gccaactct cagctgggg gctcagtgg 
      cggcagctg ttaaattga acaagcaag cgtccgaaa 
      tttgcatca attggggcg ggggtttgc atcacgcga 
      aaaaatccg aagcttcgg gcttttgct acgtaaatg 
      atattgttc tggggattt tggagctgt tgaagtacc 
      accaacgcg tgttgtaca tcgatattg acgtgcacc 
      acggtgacg gtgtcgaag aggcttttt acaccactg 
      accgggtga tgacagtct cgttccaca aatacggcg 
      agtacttcc ccggaacgg gcgatctca gagacattg 
      gcgccggca aaggcaagt actacgccg tcaatatcc 
      cccttcgtg acggcatgg acgacgaat cctacgaga 
      agattttcg ttccgataa tcagcaaag ttatggaga 
      cgttccaac cgagcgctg ttgttctcc aatgtggtg 
      cagactcct taactggtg accgcctgg ggtgcttca 
      acctcacgg tgcgaggcc acggcaagt gcgtggagt 
      tcgtcaaaa agtacaacc ttccattca tgatggtcg 
      gaggtggtg gatacacca ttaggaacg tctccagag 
      catggacgt acgaaactt ccgtcgctc taggtgtgg 
      aaatcgcca acgaactcc cttataacg actacttcg 
      agtactttg gtcccgatt ttaagctac atatcagtc 
      cgagcaata tggccaatc agaacaccc ccgagtatt 
      tggataaaa tcaagacgc gcttgtttg aaaatttga 
      ggatgttgc cgcacgcac caggtgtgc aagttcagg 
      cgattccag aagacgcga tcaatgaag aatcggatg 
      gagaggaga aagttgaca aagacgaga gactacctc 
      agaaagatc tcgataaga ggatcgtgc cagaaaatg 
      aattttccg atagtgagg acgagggag aaggggggc 
      gaagagaca atcggacgt ataagggac gaaagaggc 
      cgcggcttg aaaaagggg ttgatggga aagaatcaa 
      caggggatg aaaaaatca aagaagaac taaaatctg 
      aaaaagaag agaaagaag atagtaaag cgaacacaa 
      ttgatgatt tgaagaaag atacgggac caactccgt 
      gacatactt cttcccagt attctaaat ataagtgtc 
      gtcaatagc taattatct tattttatt aagaaacta 
      atttttaag agaaaaaat ggattcact tttacaact 
      gattaaagt gaaagttta cgacatacc caagtatgc 
      ttgaaatga caaaacatt ttgtatatt acagtgtta 
      acgtaatat cgtaattat tgaatgcaa taatcagtg 
      ttttgttgt gttcctttt ttatttagt ttgtagatt 
      attttgtac atattcatt ccattattt gctatttat 
      gtcatatca aaattacgc ctttgtaac atttcattt 
      tctgtaaat aaaatctta tggttttat ttattttta 
      tttgcttgt atctatttc cagatttgg taataaaat 
      tatataaaa gta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY