Status
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Gene information
General information
TC005562 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: 11317791..11320568
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
    TC005562
    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_00885

    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: 50.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection


    Pupal morphology
    oblique dorsal thoracic muscles size shortened - Number of animals showing the phenotype: 4

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005562 RA
      MSKPLEKSK KNFSLGELL QRRIHILQW LPKYSKSDI 
      IADFIAGIS VGLTMMPQS IAYANLAGL PAQYGLYTA 
      FIGSFTYVF FGTIKQVSI GPTSLMALL TLSYTESLS 
      VDYVILLTL LVGCVEFLM GLLKLGFLV DFISPCVTS 
      GFTSAMSVT IVTSQLKNL LGLRKLKNH GVFDVFYKV 
      ATRINEVRL ADTLLGFSC IAFLFTFKQ LATIKTRNK 
      ALKKTLWLL SISKNALIV LITSMVGYY FYEYRGGSP 
      FVLSGKVPS GLPKVKIPS FSTVNGNQT VGILEMVQT 
      LGSGIFVLP IAGVLANVA IAKAFVSGT IVDATQEMM 
      TLGLCNIFG SFVQAMPSC GAFTRSAVA NSSGVRTPL 
      QGIYSGTVI LLALSFLTP YFYYIPRST LAAILISAI 
      ITMFDYEIF PKLWKCNKF DFFLTLATL TIGVCYGVE 
      IGIIAGGLL NLLILLKVW ARPQITKEI RVDNQGNQY 
      IYIKPEVGL YYAATDYLT TNVIEAYNN RRNLPIVLD 
      CSNIIRVDY AACQTIDNL VKTFNKTNK KVTLMNVKP 
      HIFNIWRQT IDFDHLKVC QSVDNISET DSSKTNDCQ 
      IPLIDKGTS ERKMSYYDN V
    CDS sequence
    • >TC005562 RA
      atgtccaag ccgttggaa aaatcaaag aaaaatttc 
      tccttgggc gagctgctt caacggcgg attcacatc 
      ctccagtgg ctccccaag tactcaaaa tcggacata 
      atcgccgat tttatcgcc ggaatctca gtcggtctc 
      acaatgatg ccccaatcc atagcctac gccaatttg 
      gccggcttg cctgcccaa tacggcctc tacaccgcc 
      ttcatcggc tcattcact tacgttttc ttcgggaca 
      ataaaacaa gtatcaatc gggccgaca agtctcatg 
      gccctcttg acactttcg tacacggaa agcttatca 
      gtcgattac gtgatcctt ttgaccctt ttagtcggg 
      tgtgtcgaa tttttaatg gggctctta aaacttggt 
      ttcctggtc gattttatt tccccgtgt gttacttcc 
      ggcttcacg tcggcaatg tcagtgact atcgtcacc 
      tcacaactc aaaaacttg ctcggtttg aggaaactg 
      aaaaaccac ggcgttttc gacgtcttc tacaaagtt 
      gccaccaga attaacgaa gtccgactc gctgacact 
      ctgctcgga ttctcctgc attgccttc ctattcact 
      ttcaagcaa ctggcaacg atcaaaacc cgcaacaaa 
      gcgttaaaa aagacgctc tggttgctc tcaatctcg 
      aaaaacgcc ctcattgtc ttgatcacg tcgatggtg 
      gggtactac ttttacgag taccgcggg ggttccccc 
      tttgtgtta tccgggaaa gtaccgtca ggcctccca 
      aaagtcaaa atccccagt tttagcaca gttaacggc 
      aaccaaacc gtcgggatt ctcgaaatg gtgcaaact 
      ctaggctcg gggattttc gttttgcca atcgccggc 
      gttttagcc aatgttgcc atcgccaaa gccttcgtc 
      agtgggaca atcgtggac gcaacccag gaaatgatg 
      actttgggc ctgtgcaac atcttcggg tcttttgtc 
      caggcgatg ccgagctgt ggcgctttc acccgatcg 
      gccgtggcc aatagcagc ggcgtacgc acccctttg 
      caggggatt tactcagga accgtaatt ctcctagct 
      ttgagtttt ctaacaccg tatttttat tacatccca 
      aggtcgact ctcgccgct attttgata tcggcgatt 
      atcacaatg tttgactac gaaattttc cccaaactg 
      tggaaatgt aacaagttt gattttttc ctgactttg 
      gcaacacta accattgga gtgtgttac ggtgtcgag 
      attggaatt atcgcgggt gggctttta aatttgttg 
      attttgtta aaagtgtgg gcacggccc caaataacc 
      aaagaaatt cgagtcgac aaccagggg aaccaatac 
      atttatata aagccggaa gtcggtctt tattacgct 
      gcaaccgat tacttaaca accaacgta attgaagcc 
      tataataac aggcgtaat ttacccatc gtccttgat 
      tgttcaaat attatacga gtcgattat gcagcttgt 
      cagacaatc gataatctc gtgaaaacg ttcaacaaa 
      acgaacaaa aaagtgact ctgatgaac gtcaagccg 
      cacattttc aatatttgg cggcaaacg atcgacttc 
      gatcattta aaagtgtgc caaagcgtg gacaacatc 
      agtgagacc gattcgagc aaaacgaac gactgccaa 
      attccgctg atcgacaag ggaacaagt gagaggaaa 
      atgtcatac tatgataac gtttga
    mRNA sequence
    • >TC005562 RA
      acttgttca tttttcgaa cgggagata aacctctgg 
      gactgtaag aaacgcatt actacgaac gcaataagt 
      aagacaaaa gcaaataac attatcatg ttgttctca 
      accttgtcg aaaagttta aaacgttcc aataaatca 
      taacgtctt tcttgtttg ctctgcatt taattttat 
      ttaaaatcc ccatatttt atttctcac tgctcattc 
      aaacgcgcg atagtgaag tgtaaaaaa gtgcatccg 
      gtaacatgt ccaagccgt tggaaaaat caaagaaaa 
      atttctcct tgggcgagc tgcttcaac ggcggattc 
      acatcctcc agtggctcc ccaagtact caaaatcgg 
      acataatcg ccgatttta tcgccggaa tctcagtcg 
      gtctcacaa tgatgcccc aatccatag cctacgcca 
      atttggccg gcttgcctg cccaatacg gcctctaca 
      ccgccttca tcggctcat tcacttacg ttttcttcg 
      ggacaataa aacaagtat caatcgggc cgacaagtc 
      tcatggccc tcttgacac tttcgtaca cggaaagct 
      tatcagtcg attacgtga tccttttga cccttttag 
      tcgggtgtg tcgaatttt taatggggc tcttaaaac 
      ttggtttcc tggtcgatt ttatttccc cgtgtgtta 
      cttccggct tcacgtcgg caatgtcag tgactatcg 
      tcacctcac aactcaaaa acttgctcg gtttgagga 
      aactgaaaa accacggcg ttttcgacg tcttctaca 
      aagttgcca ccagaatta acgaagtcc gactcgctg 
      acactctgc tcggattct cctgcattg ccttcctat 
      tcactttca agcaactgg caacgatca aaacccgca 
      acaaagcgt taaaaaaga cgctctggt tgctctcaa 
      tctcgaaaa acgccctca ttgtcttga tcacgtcga 
      tggtggggt actactttt acgagtacc gcgggggtt 
      ccccctttg tgttatccg ggaaagtac cgtcaggcc 
      tcccaaaag tcaaaatcc ccagtttta gcacagtta 
      acggcaacc aaaccgtcg ggattctcg aaatggtgc 
      aaactctag gctcgggga ttttcgttt tgccaatcg 
      ccggcgttt tagccaatg ttgccatcg ccaaagcct 
      tcgtcagtg ggacaatcg tggacgcaa cccaggaaa 
      tgatgactt tgggcctgt gcaacatct tcgggtctt 
      ttgtccagg cgatgccga gctgtggcg ctttcaccc 
      gatcggccg tggccaata gcagcggcg tacgcaccc 
      ctttgcagg ggatttact caggaaccg taattctcc 
      tagctttga gttttctaa caccgtatt tttattaca 
      tcccaaggt cgactctcg ccgctattt tgatatcgg 
      cgattatca caatgtttg actacgaaa ttttcccca 
      aactgtgga aatgtaaca agtttgatt ttttcctga 
      ctttggcaa cactaacca ttggagtgt gttacggtg 
      tcgagattg gaattatcg cgggtgggc ttttaaatt 
      tgttgattt tgttaaaag tgtgggcac ggccccaaa 
      taaccaaag aaattcgag tcgacaacc aggggaacc 
      aatacattt atataaagc cggaagtcg gtctttatt 
      acgctgcaa ccgattact taacaacca acgtaattg 
      aagcctata ataacaggc gtaatttac ccatcgtcc 
      ttgattgtt caaatatta tacgagtcg attatgcag 
      cttgtcaga caatcgata atctcgtga aaacgttca 
      acaaaacga acaaaaaag tgactctga tgaacgtca 
      agccgcaca ttttcaata tttggcggc aaacgatcg 
      acttcgatc atttaaaag tgtgccaaa gcgtggaca 
      acatcagtg agaccgatt cgagcaaaa cgaacgact 
      gccaaattc cgctgatcg acaagggaa caagtgaga 
      ggaaaatgt catactatg ataacgttt gatacgctt 
      gttgtgata tattttatt tattttata attgtaaat 
      taaaagact tatgccaca attaaacga ttttataaa 
      aaagaaccc ccaacaatc ggacttttg tgcaaatgt 
      tgtgccagt gtataaaga attatcgag agttcaggt 
      aactcaacg gatcggtcc gtttgataa aaaaagatt 
      cactctaaa aaattaaac ttgagtaca atgtaacga 
      cgaacattc tctctctct gctgcattg cttgtatca 
      caataataa aaaaaatcg aaacgttcg cttagaatt 
      acttaacaa ctggtcaca tctacgtat gaatcaccc 
      tacggttgc gtaggccta cccgcccta attcgtaaa 
      acaacaatc agtcttaaa aaactaaca acaaaattc 
      cctgtactg tactattac tcggttaat agctacaat 
      aaagcgttt caattaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY