Status
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Gene information
General information
TC014238 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_007416.3: 3549434..3551258
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
    TC014238
    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_10205

    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)

    Adult morphology
    abdominal odoriferous glands colour darker - Number of animals showing the phenotype: 4 (13 dpi)
    Days post injection


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: number 2nd lateral oviduct: - Number of animals showing the phenotype: 2
    previtellogenic egg chamber number decreased - Number of animals showing the phenotype: 1

    vitellarium size shortened - Number of animals showing the phenotype: 1

    mature egg not present - Number of animals showing the phenotype: 2

    egg chamber number decreased - Number of animals showing the phenotype: 2

    vitellogenic egg chamber potentially degenerated - Number of animals showing the phenotype: 2
    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
    • >TC014238 RA
      MKFSTILLC TLFTIFVIA SKVVFDKIY QTARLIIDE 
      EFHFQLGEA YCRYEFDKW HPKITTFPG LYLFSNLLL 
      GPFDLCSSY WLRLTSLVS SFANLILFY CLLNLNNEQ 
      PKWQNAISA TSLSLLPPM YFFGHLYYT DTVSLTMVS 
      VLFLLSQRK HHYFASIFG LFSVLCRQT NIIWVLMAF 
      GCYVLKDVN NICNKSRKT DCVSAKELV ELLKLAKGK 
      NLLMTIKKM PFVFWLNAT CYGSLLLIF ALFVYMHGS 
      IVVGDKTAH EATIHLPQL FYFSLFCLF FAWPHFVTE 
      ITGFLKFVK RHKIISLAV VLSSVAIVH FNTLVHPYV 
      LADNRHYIF YIWNRFYGR YFWFRYCVV PVYLFAWFV 
      IVRKLWDRL DVTFLLFFI PCTTVVLVT QKLLEFRYF 
      FIPYVLFRT HLKNADVRF VLCEFVTYC VLNFCTLYI 
      FFNKTIEWE NFDCPQRLI W
    CDS sequence
    • >TC014238 RA
      atgaaattt tccacgatt ttgttgtgt accttgttc 
      acaatcttt gtcatagct tcgaaagtt gtattcgac 
      aaaatatat caaaccgca agacttatt attgatgaa 
      gagtttcat tttcaactt ggagaagct tattgcaga 
      tacgaattc gacaagtgg cacccgaaa ataacaaca 
      tttccaggc ctctatcta ttcagtaac ttgttactg 
      gggcctttt gatttgtgt tcaagttat tggctaaga 
      ctgacttca ttggtttcc tcattcgcg aatttaata 
      cttttttat tgcttacta aacctaaat aatgaacaa 
      cccaagtgg caaaatgcc atttcagca accagttta 
      tcattatta ccaccgatg tactttttt ggccatctc 
      tattacaca gatactgtc tcgcttacg atggtttcc 
      gtgcttttt ttactgtca caaagaaag caccactat 
      tttgcgtcg atctttgga ttattttcc gttttgtgc 
      cgacaaacc aacataata tgggttctg atggctttc 
      gggtgctat gtcctaaaa gacgtaaac aacatttgc 
      aacaagtct agaaaaact gactgcgtt tctgcaaag 
      gaattggtc gagttgtta aaactggcg aaagggaaa 
      aatctattg atgacgatc aaaaaaatg ccgttcgtt 
      ttttggtta aacgccact tgttacggc tctttgttg 
      ctaattttt gcattgttt gtctacatg catggaagt 
      atagttgtg ggtgataaa acagcgcat gaggccacc 
      attcatttg ccccaatta ttttatttt tcgcttttt 
      tgcctgttt tttgcttgg cctcacttc gttactgaa 
      attactggt ttccttaaa tttgtgaag cgacataaa 
      attatcagt ctggctgtt gtgttatca agtgtggct 
      atagtgcat ttcaacact ttggttcat ccgtatgtt 
      ttggccgac aacaggcat tacattttt tacatttgg 
      aaccgattt tacgggagg tatttttgg ttccgctat 
      tgcgttgtt ccagtgtat ttatttgca tggtttgtg 
      atagttaga aaactgtgg gatagacta gatgtgacg 
      ttccttctg tttttcatt ccatgtaca acggtggtt 
      ttagtaaca cagaaacta ctagagttt cggtatttt 
      tttattcca tatgttctc ttccgaacg catttgaaa 
      aatgctgat gttcggttc gtgttatgc gagttcgta 
      acttactgt gtacttaat ttttgcaca ctgtatata 
      tttttcaac aagactata gaatgggaa aatttcgat 
      tgtccccaa aggctgatt tggtaa
    mRNA sequence
    • >TC014238 RA
      ctcccaaaa ataatgttt caaatgaaa ttttccacg 
      attttgttg tgtaccttg ttcacaatc tttgtcata 
      gcttcgaaa gttgtattc gacaaaata tatcaaacc 
      gcaagactt attattgat gaagagttt cattttcaa 
      cttggagaa gcttattgc agatacgaa ttcgacaag 
      tggcacccg aaaataaca acatttcca ggcctctat 
      ctattcagt aacttgtta ctggggcct tttgatttg 
      tgttcaagt tattggcta agactgact tcattggtt 
      tcctcattc gcgaattta atacttttt tattgctta 
      ctaaaccta aataatgaa caacccaag tggcaaaat 
      gccatttca gcaaccagt ttatcatta ttaccaccg 
      atgtacttt tttggccat ctctattac acagatact 
      gtctcgctt acgatggtt tccgtgctt tttttactg 
      tcacaaaga aagcaccac tattttgcg tcgatcttt 
      ggattattt tccgttttg tgccgacaa accaacata 
      atatgggtt ctgatggct ttcgggtgc tatgtccta 
      aaagacgta aacaacatt tgcaacaag tctagaaaa 
      actgactgc gtttctgca aaggaattg gtcgagttg 
      ttaaaactg gcgaaaggg aaaaatcta ttgatgacg 
      atcaaaaaa atgccgttc gttttttgg ttaaacgcc 
      acttgttac ggctctttg ttgctaatt tttgcattg 
      tttgtctac atgcatgga agtatagtt gtgggtgat 
      aaaacagcg catgaggcc accattcat ttgccccaa 
      ttattttat ttttcgctt ttttgcctg ttttttgct 
      tggcctcac ttcgttact gaaattact ggtttcctt 
      aaatttgtg aagcgacat aaaattatc agtctggct 
      gttgtgtta tcaagtgtg gctatagtg catttcaac 
      actttggtt catccgtat gttttggcc gacaacagg 
      cattacatt ttttacatt tggaaccga ttttacggg 
      aggtatttt tggttccgc tattgcgtt gttccagtg 
      tatttattt gcatggttt gtgatagtt agaaaactg 
      tgggataga ctagatgtg acgttcctt ctgtttttc 
      attccatgt acaacggtg gttttagta acacagaaa 
      ctactagag tttcggtat ttttttatt ccatatgtt 
      ctcttccga acgcatttg aaaaatgct gatgttcgg 
      ttcgtgtta tgcgagttc gtaacttac tgtgtactt 
      aatttttgc acactgtat atatttttc aacaagact 
      atagaatgg gaaaatttc gattgtccc caaaggctg 
      atttggtaa ggcgtattt atttttgtg gctgttaat 
      taaatgtac caataaata
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY