Status
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Gene information
General information
TC031115
Former TC numbers

If one gene is splitted or genes are merged, the original TC numbers are listed. One listed former TC number indicates the previous gene has be splitted, serveral former TC number represents a merged gene.

TC007028
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_007419.2: 11330842..11358683
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
    TC031115
    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
    {{ goGene }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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_09038

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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: % (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
    • >TC031115 RA
      MRSMFCSKE SPGEDEEET GSGLAPSSG PTETCIEMV 
      RTDNIATFS SAHLLEKPL IDKKVKRHS IHGMMEEEN 
      VIRPHQEIA QLSLDEKKF LLAVERGDV ASTRRTLQK 
      AEETGFINI NCVDPLGRS ALLMAIDNE NLEMVELLI 
      EHKVETKDA LLHAISEEF VEAVEVLLD HEETIHKPG 
      EPHSWEALP PDTATFTPD ITPLILSAH RDNYEIIKI 
      LLDRGATLP MPHDVRCGC DECVTSRQE DSLRHSRSR 
      INAYRALAS PSLIALSSK DPILTAFEL SWELRRLSL 
      MEHEFKSEY QELRKQCQD FATALLDHT RSSYELEVL 
      LNHDPTGPA FEHGDRMHL NRLKLAIKL RQKKVRLYV 
      EN
    CDS sequence
    • >TC031115 RA
      atgagatcc atgttttgt tctaaggag agtccgggc 
      gaagatgag gaagaaacg gggtccgga ctggcccct 
      tcgtctggg cccacggag acctgtata gagatggtc 
      cggaccgat aacatcgcc actttctcc tcagctcat 
      ctcctggag aagccattg atcgataaa aaagttaag 
      agacatagc atacatgga atgatggag gaggaaaat 
      gtcatcagg ccgcaccag gagatcgca caattatcc 
      ctcgatgag aagaagttc ctgttggct gtggaaagg 
      ggcgatgtt gcctcgacc agacggacg ctgcagaag 
      gctgaagaa actggtttc attaacatc aactgtgtg 
      gatccatta gggcgaagt gcccttctt atggccatt 
      gataacgaa aacttggaa atggtcgaa ctattaatc 
      gaacataaa gttgagacc aaggacgcg ctccttcat 
      gccatttcg gaggagttt gttgaagct gttgaggtg 
      ctactagac catgaagag accatccac aagccaggc 
      gaaccacat agttgggaa gctttacct ccagacact 
      gcaactttt actccagac atcactccg ctcatcttg 
      tcagctcat cgcgacaac tacgaaatt atcaagatc 
      ttgttggat agaggagcc acattgccg atgccacat 
      gatgtcaga tgcggctgc gacgaatgc gtgacctcc 
      cgccaggag gactccctg cggcactcc cggagccga 
      atcaacgcg taccgggcc ctagcatca ccttctctg 
      atcgccctt tcgtccaaa gaccccatc cttaccgcc 
      ttcgagctg tcttgggaa ttgcgccgg ctaagtctg 
      atggagcac gagttcaag agcgagtat caagagcta 
      aggaaacag tgtcaggat ttcgctaca gcgctgctc 
      gatcacacg aggagctct tacgaactg gaggtgcta 
      ctaaatcac gatccaaca gggccggct ttcgaacac 
      ggagacagg atgcacttg aacaggctc aagctcgcc 
      atcaaactt aggcaaaaa aaggtaagg ctttatgtg 
      gaaaattaa
    mRNA sequence
    • >TC031115 RA
      tttcgcctg aaaatgtgc tcagatgag atccatgtt 
      ttgttctaa ggagagtcc gggcgaaga tgaggaaga 
      aacggggtc cggactggc cccttcgtc tgggcccac 
      ggagacctg tatagagat ggtccggac cgataacat 
      cgccacttt ctcctcagc tcatctcct ggagaagcc 
      attgatcga taaaaaagt taagagaca tagcataca 
      tggaatgat ggaggagga aaatgtcat caggccgca 
      ccaggagat cgcacaatt atccctcga tgagaagaa 
      gttcctgtt ggctgtgga aaggggcga tgttgcctc 
      gaccagacg gacgctgca gaaggctga agaaactgg 
      tttcattaa catcaactg tgtggatcc attagggcg 
      aagtgccct tcttatggc cattgataa cgaaaactt 
      ggaaatggt cgaactatt aatcgaaca taaagttga 
      gaccaagga cgcgctcct tcatgccat ttcggagga 
      gtttgttga agctgttga ggtgctact agaccatga 
      agagaccat ccacaagcc aggcgaacc acatagttg 
      ggaagcttt acctccaga cactgcaac ttttactcc 
      agacatcac tccgctcat cttgtcagc tcatcgcga 
      caactacga aattatcaa gatcttgtt ggatagagg 
      agccacatt gccgatgcc acatgatgt cagatgcgg 
      ctgcgacga atgcgtgac ctcccgcca ggaggactc 
      cctgcggca ctcccggag ccgaatcaa cgcgtaccg 
      ggccctagc atcaccttc tctgatcgc cctttcgtc 
      caaagaccc catccttac cgccttcga gctgtcttg 
      ggaattgcg ccggctaag tctgatgga gcacgagtt 
      caagagcga gtatcaaga gctaaggaa acagtgtca 
      ggatttcgc tacagcgct gctcgatca cacgaggag 
      ctcttacga actggaggt gctactaaa tcacgatcc 
      aacagggcc ggctttcga acacggaga caggatgca 
      cttgaacag gctcaagct cgccatcaa acttaggca 
      aaaaaaggt aaggcttta tgtggaaaa ttaatggtc 
      tgatgttat cacaattta aattcttgc gtgcgttat 
      tgttgtaat ttgttacgg gtttagtac gtttttcaa 
      tgtcttctg cgagattat gatgaaaaa tgagatatt 
      ccagactga acatttgtt tggaaggtt tcggaaaaa 
      ttaattttt gtaaaacaa atctcaccc gagatttaa 
      tcttatcaa ttaaagttg atctaacga t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY