Status
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Gene information
General information
TC002388 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: 31369544..31380513
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
    TC002388
    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_03367

    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: 4 (3 dpi)
    Days post injection


    adult nutritional state potentially bad (cachectic) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: - Number of animals showing the phenotype: 1
    ovary without detectable defects - Number of animals showing the phenotype: 1
    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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002388 RA
      MADKIPNGT TTEMETFLP KDESSINGN VTTYKVTKD 
      NDLEAANAD FDPFKTRVL DHPVSNCDT LTHLLKASL 
      GTGILSMPA AFKASGLVL GIFATIVVS IICTHCAYI 
      LVASAHELY KKTGKPAMS FAEVAEQAC LRGPKWARK 
      FAWVARLTV LWGIFATYF ATCSCYTVI IAKNFLYVT 
      EHYWGENSV NIRAAIALL LVPLILLAF VPNLKYLAP 
      VSMVANGCM AVGLGITFY YLVQGIPSF TERPAVVDI 
      TTLPVCISV VIFAIEAIG VVMPLENNM STPRSFVGI 
      CGVLNQGMS FVTLVYIIL GFFGYLKYG EETKDSITY 
      NLPREAIAA QAVNVLVGI AVFCTYGLQ FYVCLDIAW 
      SQMKDKFVK RETLANYGL RTVLVTLSV LIAVAVPTI 
      IPFVSLIGA FCFSILGLM CPVFIEVLT FWDKGFGKG 
      NWKIVKNVI IVLTGCLAL IFGSKSAIQ DIIKLFY
    CDS sequence
    • >TC002388 RA
      atggcggac aaaattcca aatggcacc acaaccgaa 
      atggaaaca tttctccca aaagacgaa tcgtcaatc 
      aacggaaat gtgacaacg tacaaagta acaaaagac 
      aacgattta gaagccgca aatgccgac tttgacccg 
      ttcaaaacc cgggtgctg gatcaccca gtttcaaac 
      tgtgatact ttgacccat ctccttaaa gcttcacta 
      ggcacagga attttatca atgccggca gctttcaaa 
      gcctcggga cttgttcta gggattttt gccacaata 
      gtagtgtcc ataatttgc acacactgt gcttacatc 
      ctcgtggct tcggcacac gagttgtac aaaaaaacc 
      ggtaaaccg gcgatgagt tttgccgaa gttgcggaa 
      caagcatgt cttagaggc ccaaagtgg gcgaggaaa 
      tttgcatgg gtggcacgc ctgactgtg ttatgggga 
      attttcgcg acttatttt gccacctgt agttgctac 
      actgtgatc attgcgaag aattttctc tacgttacg 
      gaacactac tggggggag aattcagtg aatattagg 
      gcggctatt gccttgctg ttggtaccc ctgattttg 
      ttggctttt gtgccgaat ttgaaatac ttggcgccg 
      gtttccatg gttgccaat ggttgtatg gctgtggga 
      ttgggcatt acgttttat tatcttgtt caggggatt 
      ccctcgttc actgaacgg ccggctgtg gtcgatata 
      accacgttg ccggtttgt ataagtgtt gtgattttt 
      gctattgag gctattggt gttgttatg ccattggag 
      aataatatg agtacaccg aggagtttt gttgggatt 
      tgtggcgtt ttgaaccaa gggatgagt tttgtgacg 
      ctggtttac atcattttg ggatttttt gggtatttg 
      aagtatggg gaagagacc aaggattcc atcacttat 
      aatctacca agagaggca atagccgcc caagctgtg 
      aacgtcctc gtcggaatc gccgtcttc tgcacctac 
      ggcctccaa ttctacgtc tgtctcgac atcgcctgg 
      tcccaaatg aaagacaaa ttcgtaaaa cgcgaaact 
      ttggccaat tacggcctc cgtacagtt cttgtaact 
      ttgagcgtt ttaatcgca gttgctgta ccaacaatt 
      ataccattc gtatctcta attggagct ttctgtttc 
      tcaattctg ggcttaatg tgcccagtt ttcatcgaa 
      gtgctcaca ttttgggac aaaggtttt ggcaaaggc 
      aattggaaa atcgtcaaa aacgtgatt attgtactc 
      acagggtgt ttagcgctg attttcggc tcgaagtcg 
      gccattcag gatataatc aagttgttt tattag
    mRNA sequence
    • >TC002388 RA
      cccttccag taaagttcg acgcttcag caagttgca 
      ttcagtgct cgatcgcca caaacacgt gcaaagagt 
      ggtgcattt ttcacttaa atcgatggt aatcgagtc 
      taattagtt caaacacag cagcacttc acaaaatgg 
      cggacaaaa ttccaaatg gcaccacaa ccgaaatgg 
      aaacatttc tcccaaaag acgaatcgt caatcaacg 
      gaaatgtga caacgtaca aagtaacaa aagacaacg 
      atttagaag ccgcaaatg ccgactttg acccgttca 
      aaacccggg tgctggatc acccagttt caaactgtg 
      atactttga cccatctcc ttaaagctt cactaggca 
      caggaattt tatcaatgc cggcagctt tcaaagcct 
      cgggacttg ttctaggga tttttgcca caatagtag 
      tgtccataa tttgcacac actgtgctt acatcctcg 
      tggcttcgg cacacgagt tgtacaaaa aaaccggta 
      aaccggcga tgagttttg ccgaagttg cggaacaag 
      catgtctta gaggcccaa agtgggcga ggaaatttg 
      catgggtgg cacgcctga ctgtgttat ggggaattt 
      tcgcgactt attttgcca cctgtagtt gctacactg 
      tgatcattg cgaagaatt ttctctacg ttacggaac 
      actactggg gggagaatt cagtgaata ttagggcgg 
      ctattgcct tgctgttgg tacccctga ttttgttgg 
      cttttgtgc cgaatttga aatacttgg cgccggttt 
      ccatggttg ccaatggtt gtatggctg tgggattgg 
      gcattacgt tttattatc ttgttcagg ggattccct 
      cgttcactg aacggccgg ctgtggtcg atataacca 
      cgttgccgg tttgtataa gtgttgtga tttttgcta 
      ttgaggcta ttggtgttg ttatgccat tggagaata 
      atatgagta caccgagga gttttgttg ggatttgtg 
      gcgttttga accaaggga tgagttttg tgacgctgg 
      tttacatca ttttgggat tttttgggt atttgaagt 
      atggggaag agaccaagg attccatca cttataatc 
      taccaagag aggcaatag ccgcccaag ctgtgaacg 
      tcctcgtcg gaatcgccg tcttctgca cctacggcc 
      tccaattct acgtctgtc tcgacatcg cctggtccc 
      aaatgaaag acaaattcg taaaacgcg aaactttgg 
      ccaattacg gcctccgta cagttcttg taactttga 
      gcgttttaa tcgcagttg ctgtaccaa caattatac 
      cattcgtat ctctaattg gagctttct gtttctcaa 
      ttctgggct taatgtgcc cagttttca tcgaagtgc 
      tcacatttt gggacaaag gttttggca aaggcaatt 
      ggaaaatcg tcaaaaacg tgattattg tactcacag 
      ggtgtttag cgctgattt tcggctcga agtcggcca 
      ttcaggata taatcaagt tgttttatt agcgtgtaa 
      ttgaacaag accaaaaat ttttagtac ttttttgac 
      cgtttcgta gataggtta tttatttat tggagcgag 
      acaattcta ttggtaaat tgttgttga agtattatt 
      tttacgtcc acttgtaca aaaaaaatt ggcttggtt 
      ttacacaaa aaattactc agtgtttta cattccaac 
      tgtaatttc gaaattcgg gacaattaa tttaccaat 
      aaatgactg taaaaagta tttatttat ttaagcaca 
      atcaacatt atctgcaat tattttaag tgtttaaat 
      aggcaatgg aatagtatt tgtatattt tgttccgcg 
      atatgaaca agaaatcgg aaaataaca tcaagtatt 
      tgatggatg ttgagcttt tagcaggat gaaagttgt 
      aaatgtaca taaaactgt gtgtttgtt ttataattt 
      ttgacaaaa actgtgtat ttttaaaga aaaataaat 
      ataatttcg ataa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY