Status
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Gene information
General information
TC016278 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_007424.3: 10443309..10456954
Sequence information
Transcripts / Proteins (2) 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
    TC016278
    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_05986

    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: 10.0% (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


    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: -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
    • >TC016278 RA
      MKVPINISL DYMDYINYY TYFLETKSD PRTSKWFLI 
      GSPGPVLTI IATYLYFCI YAGPRYMKD RKPFDLKNA 
      IIVYNFLQV IFSIFLVYE GLMGGWATG YSLKCQPVD 
      YSDNPMAIR MAQAVWLYF LCKIIELLD TVFFVLRKK 
      MNQVTFLHL YHHAMMPIC SWIGVKFLP GGHGTLLGL 
      INSFIHIIM YSYYFVSSM GPQYQKYLW WKKHLTAMQ 
      MVQFCIIFF HNLQVLFRQ CDYPKFIVM LLGTQALFF 
      LFLFGSFYH KTYIQKPKA LEKTNNNVQ NGKTKVN
    • >TC016278 RB
      MGLANLMKV PINISLDYM DYINYYTYF LETKSDPRT 
      SKWFLIGSP GPVLTIIAT YLYFCIYAG PRYMKDRKP 
      FDLKNAIIV YNFLQVIFS IFLVYEGLM GGWATGYSL 
      KCQPVDYSD NPMAIRMAQ AVWLYFLCK IIELLDTVF 
      FVLRKKMNQ VTFLHLYHH AMMPICSWI GVKFLPGGH 
      GTLLGLINS FIHIIMYSY YFVSSMGPQ YQKYLWWKK 
      HLTAMQMVQ FCIIFFHNL QVLFRQCDY PKFIVMLLG 
      TQALFFLFL FGSFYHKTY IQKPKALEK TNNNVQNGK 
      TKVN
    CDS sequence
    • >TC016278 RA
      atgaaggta ccgatcaac atcagtcta gattatatg 
      gattatata aactactac acgtatttc ctcgagacg 
      aaaagtgat cccaggaca tcgaaatgg ttccttatc 
      ggctctcca ggacccgtc ctcaccata attgcgacc 
      tatttatat ttttgtatc tacgccggc cctcgttac 
      atgaaagat aggaaaccg ttcgatctg aaaaacgcg 
      ataatagtc tacaatttt ttacaagtc attttcagc 
      atattccta gtttatgag ggcttgatg gggggatgg 
      gcaacaggc tacagcctg aaatgccaa cctgtggat 
      tactccgac aatcctatg gcaattcgg atggcccaa 
      gccgtgtgg ttgtatttc ctctgtaaa ataatcgag 
      ctgctcgat acggtgttt ttcgtcttg aggaagaaa 
      atgaatcag gttacattc ctccacctg taccatcac 
      gccatgatg ccgatctgc tcatggatc ggtgtgaaa 
      ttcttgccg ggaggtcat ggcactttg ctgggattg 
      atcaattcc tttattcac ataataatg tactcgtac 
      tacttcgtg tcttcgatg gggccccag taccaaaaa 
      tatctgtgg tggaagaag catttgacg gcaatgcaa 
      atggtgcaa ttttgcata atctttttc cataattta 
      caagtgttg ttccggcag tgtgattac ccaaagttt 
      atcgtaatg ttgttaggt acacaagcg ctgtttttc 
      ttgtttttg ttcggtagc ttctatcat aaaacgtat 
      attcagaaa ccgaaggct ctagagaag accaacaac 
      aatgtacaa aacggcaag acaaaagtg aactaa
    • >TC016278 RB
      atgggactg gcaaattta atgaaggta ccgatcaac 
      atcagtcta gattatatg gattatata aactactac 
      acgtatttc ctcgagacg aaaagtgat cccaggaca 
      tcgaaatgg ttccttatc ggctctcca ggacccgtc 
      ctcaccata attgcgacc tatttatat ttttgtatc 
      tacgccggc cctcgttac atgaaagat aggaaaccg 
      ttcgatctg aaaaacgcg ataatagtc tacaatttt 
      ttacaagtc attttcagc atattccta gtttatgag 
      ggcttgatg gggggatgg gcaacaggc tacagcctg 
      aaatgccaa cctgtggat tactccgac aatcctatg 
      gcaattcgg atggcccaa gccgtgtgg ttgtatttc 
      ctctgtaaa ataatcgag ctgctcgat acggtgttt 
      ttcgtcttg aggaagaaa atgaatcag gttacattc 
      ctccacctg taccatcac gccatgatg ccgatctgc 
      tcatggatc ggtgtgaaa ttcttgccg ggaggtcat 
      ggcactttg ctgggattg atcaattcc tttattcac 
      ataataatg tactcgtac tacttcgtg tcttcgatg 
      gggccccag taccaaaaa tatctgtgg tggaagaag 
      catttgacg gcaatgcaa atggtgcaa ttttgcata 
      atctttttc cataattta caagtgttg ttccggcag 
      tgtgattac ccaaagttt atcgtaatg ttgttaggt 
      acacaagcg ctgtttttc ttgtttttg ttcggtagc 
      ttctatcat aaaacgtat attcagaaa ccgaaggct 
      ctagagaag accaacaac aatgtacaa aacggcaag 
      acaaaagtg aactaa
    mRNA sequence
    • >TC016278 RA
      gttccattt tcgagttgc acccagaag atggtggtt 
      tagtgcgcc ttgctcgag aaaaatctg tttcggaac 
      acaaggccg agaattttt gtgatttag ggtgaacta 
      agcaaattt aatgaaggt accgatcaa catcagtct 
      agattatat ggattatat aaactacta cacgtattt 
      cctcgagac gaaaagtga tcccaggac atcgaaatg 
      gttccttat cggctctcc aggacccgt cctcaccat 
      aattgcgac ctatttata tttttgtat ctacgccgg 
      ccctcgtta catgaaaga taggaaacc gttcgatct 
      gaaaaacgc gataatagt ctacaattt tttacaagt 
      cattttcag catattcct agtttatga gggcttgat 
      ggggggatg ggcaacagg ctacagcct gaaatgcca 
      acctgtgga ttactccga caatcctat ggcaattcg 
      gatggccca agccgtgtg gttgtattt cctctgtaa 
      aataatcga gctgctcga tacggtgtt tttcgtctt 
      gaggaagaa aatgaatca ggttacatt cctccacct 
      gtaccatca cgccatgat gccgatctg ctcatggat 
      cggtgtgaa attcttgcc gggaggtca tggcacttt 
      gctgggatt gatcaattc ctttattca cataataat 
      gtactcgta ctacttcgt gtcttcgat ggggcccca 
      gtaccaaaa atatctgtg gtggaagaa gcatttgac 
      ggcaatgca aatggtgca attttgcat aatcttttt 
      ccataattt acaagtgtt gttccggca gtgtgatta 
      cccaaagtt tatcgtaat gttgttagg tacacaagc 
      gctgttttt cttgttttt gttcggtag cttctatca 
      taaaacgta tattcagaa accgaaggc tctagagaa 
      gaccaacaa caatgtaca aaacggcaa gacaaaagt 
      gaactaatc gctgttatt ttatttatt ttgaatatt 
      tgtgtaatt attgagact tttccaaat ataaagtta 
      ttatatcg
    • >TC016278 RB
      catataaaa tgaaacaaa aagacctgg cggcatttc 
      actaataag tagtgaatt acactagtt tgaagaaga 
      acgtgcacg tcctcacgg tttttgagt attgtacaa 
      ttagtggaa attgaaaga aagttatgc cctttaaat 
      gcagaaacg cacgcgtac tggtataac gttgtaatc 
      agaaccaaa cagctttta gtgattttg acacagttg 
      tagttctag gtttatact atattgtgg tcattatgg 
      gactggcaa atttaatga aggtaccga tcaacatca 
      gtctagatt atatggatt atataaact actacacgt 
      atttcctcg agacgaaaa gtgatccca ggacatcga 
      aatggttcc ttatcggct ctccaggac ccgtcctca 
      ccataattg cgacctatt tatattttt gtatctacg 
      ccggccctc gttacatga aagatagga aaccgttcg 
      atctgaaaa acgcgataa tagtctaca attttttac 
      aagtcattt tcagcatat tcctagttt atgagggct 
      tgatggggg gatgggcaa caggctaca gcctgaaat 
      gccaacctg tggattact ccgacaatc ctatggcaa 
      ttcggatgg cccaagccg tgtggttgt atttcctct 
      gtaaaataa tcgagctgc tcgatacgg tgtttttcg 
      tcttgagga agaaaatga atcaggtta cattcctcc 
      acctgtacc atcacgcca tgatgccga tctgctcat 
      ggatcggtg tgaaattct tgccgggag gtcatggca 
      ctttgctgg gattgatca attccttta ttcacataa 
      taatgtact cgtactact tcgtgtctt cgatggggc 
      cccagtacc aaaaatatc tgtggtgga agaagcatt 
      tgacggcaa tgcaaatgg tgcaatttt gcataatct 
      ttttccata atttacaag tgttgttcc ggcagtgtg 
      attacccaa agtttatcg taatgttgt taggtacac 
      aagcgctgt ttttcttgt ttttgttcg gtagcttct 
      atcataaaa cgtatattc agaaaccga aggctctag 
      agaagacca acaacaatg tacaaaacg gcaagacaa 
      aagtgaact aatcgctgt tattttatt tattttgaa 
      tatttgtgt aattattga gacttttcc aaatataaa 
      gttattata tcg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY