Status
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Gene information
General information
TC000057 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: 10827465..10829804
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
    TC000057
    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_09775

    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: 60.0% (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


    adult lethality - Number of animals showing the phenotype: 1 (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: % (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
    • >TC000057 RA
      MGRRSINTT KSGKYMNPT DQARKEARK QELKKNKKQ 
      RQMVRAAVL KGKDPQQIL EEMEKIDQM EYNVYQPSP 
      LNEKVLKDK RKKLRDTLD RVLSMYYKD DPDKWADLK 
      RRQADYEHK RNQLVAFYE SVKSAQQVQ VDEIPLPQL 
      PQQPSNAPA QIPLPSERK QEHTIYSIA TALKLQALG 
      QPVREPPGC PPGPPPDIN DDGEVEDFT RTDDEKDET 
      TEDSDTDPS SKPTSLQQK MVALSGQNV DDFMKEMEV 
      VQKKLETKE DETRAKTHP EPLIPPGTD LPQPPTPLL 
      FPNPGLRLP PGPPPGRPL LPPAPPPGL PPPPRMPLR 
      IPPAPPRMI RLHGPPPTL PGGPNLPLG TPNVLSAAP 
      QLINRVEST KQGATISAK PQIRNLSAD VTRFVPSAL 
      RVKREDKKH KPNTRTLHE LKQKEYHLH QNTHPEQHT 
      KDDAYKQFM EEMQTLL
    CDS sequence
    • >TC000057 RA
      atggggcgc cggtcgatt aataccact aagagtggt 
      aaatacatg aatcccacc gaccaagcc agaaaagaa 
      gcccggaaa caggaatta aaaaagaat aaaaagcag 
      agacagatg gtacgggcc gctgttttg aaaggcaaa 
      gacccgcaa cagatttta gaagaaatg gaaaaaatt 
      gatcagatg gagtataat gtttatcaa ccgtcgccc 
      ttaaatgag aaagtttta aaagacaag agaaaaaag 
      ttaagggat acgttagat cgagttctt agtatgtat 
      tataaagac gatcctgat aagtgggcc gatttgaaa 
      cgaagacaa gccgattat gaacataaa aggaaccaa 
      ttagtcgca ttttatgag tctgttaag agtgcacag 
      caagtccaa gttgatgaa attcctctg ccacaacta 
      ccccaacaa ccaagtaat gccccagcg caaatcccg 
      ctaccttcg gaaagaaaa caagagcac acgatttat 
      tccatagcc accgcgcta aagttgcaa gcactgggc 
      cagcctgtg cgtgagccc cccgggtgc ccccccggc 
      ccgccacca gacatcaac gacgacggc gaagtggaa 
      gacttcact cgaaccgac gacgaaaag gacgaaaca 
      actgaagac tccgacaca gacccctcc tccaagccc 
      acctccctc caacagaaa atggtggct ttatctggc 
      caaaacgtc gacgacttc atgaaagaa atggaagtc 
      gtccagaaa aaactcgaa acaaaagaa gacgaaacc 
      cgggctaaa acccaccct gaaccactc atccctccc 
      ggaacggac ctcccacag ccccccact ccactccta 
      ttccccaat cctggactt cgattgcct ccaggcccg 
      ccccccggc cgtcccctt ctcccccca gcgccacca 
      ccgggatta ccaccgccg cctaggatg ccgctgcgt 
      atcccacca gcgccacct aggatgatt cgcttgcat 
      gggcccccg cctacgctc ccagggggc cccaatttg 
      cccttaggg accccgaat gtgttgtcg gcagccccc 
      caactcata aatcgggtc gagtcgacc aaacagggg 
      gcgacgatt tcggcgaag ccccaaatt cgcaacttg 
      agtgctgat gtgacgagg tttgtgccc tcggcgttg 
      agggttaaa agggaggat aaaaaacac aagccaaat 
      acgaggacg ttgcacgag ttgaagcag aaagagtac 
      catttgcat caaaatacg cacccagag caacatacg 
      aaagatgac gcctataag cagtttatg gaagaaatg 
      cagacgcta ttgtag
    mRNA sequence
    • >TC000057 RA
      attgacttt gtatttcga ccacagaat attcggctg 
      caagtcaat tcgaccgcg cgccatgta atgtttgca 
      atgatgttt tgagtgcat tttacgagt tttacgtga 
      aaataaagt gatattaag ttaaaatgg ggcgccggt 
      cgattaata ccactaaga gtggtaaat acatgaatc 
      ccaccgacc aagccagaa aagaagccc ggaaacagg 
      aattaaaaa agaataaaa agcagagac agatggtac 
      gggccgctg ttttgaaag gcaaagacc cgcaacaga 
      ttttagaag aaatggaaa aaattgatc agatggagt 
      ataatgttt atcaaccgt cgcccttaa atgagaaag 
      ttttaaaag acaagagaa aaaagttaa gggatacgt 
      tagatcgag ttcttagta tgtattata aagacgatc 
      ctgataagt gggccgatt tgaaacgaa gacaagccg 
      attatgaac ataaaagga accaattag tcgcatttt 
      atgagtctg ttaagagtg cacagcaag tccaagttg 
      atgaaattc ctctgccac aactacccc aacaaccaa 
      gtaatgccc cagcgcaaa tcccgctac cttcggaaa 
      gaaaacaag agcacacga tttattcca tagccaccg 
      cgctaaagt tgcaagcac tgggccagc ctgtgcgtg 
      agccccccg ggtgccccc ccggcccgc caccagaca 
      tcaacgacg acggcgaag tggaagact tcactcgaa 
      ccgacgacg aaaaggacg aaacaactg aagactccg 
      acacagacc cctcctcca agcccacct ccctccaac 
      agaaaatgg tggctttat ctggccaaa acgtcgacg 
      acttcatga aagaaatgg aagtcgtcc agaaaaaac 
      tcgaaacaa aagaagacg aaacccggg ctaaaaccc 
      accctgaac cactcatcc ctcccggaa cggacctcc 
      cacagcccc ccactccac tcctattcc ccaatcctg 
      gacttcgat tgcctccag gcccgcccc ccggccgtc 
      cccttctcc ccccagcgc caccaccgg gattaccac 
      cgccgccta ggatgccgc tgcgtatcc caccagcgc 
      cacctagga tgattcgct tgcatgggc ccccgccta 
      cgctcccag ggggcccca atttgccct tagggaccc 
      cgaatgtgt tgtcggcag ccccccaac tcataaatc 
      gggtcgagt cgaccaaac agggggcga cgatttcgg 
      cgaagcccc aaattcgca acttgagtg ctgatgtga 
      cgaggtttg tgccctcgg cgttgaggg ttaaaaggg 
      aggataaaa aacacaagc caaatacga ggacgttgc 
      acgagttga agcagaaag agtaccatt tgcatcaaa 
      atacgcacc cagagcaac atacgaaag atgacgcct 
      ataagcagt ttatggaag aaatgcaga cgctattgt 
      agtttcttt tattaaaaa aattacagt ttcctgtaa 
      tgaaaattt ttacttaga ctggtaaaa aaaatgtag 
      gtagtaagc tgtgacgtg caatctgaa ttgtcaaat 
      tgacagttg tacaccgca gccttgatt ttggaaaaa 
      tcgtgcgtg atcgttgtt ttcctcaca cttgcttgc 
      gtcatgatt tttatcgca attgtttaa ttgcctaat 
      aaaccgcat tgacgtca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY