Status
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Gene information
General information
TC011971 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: 9631533..9634104
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
    TC011971
    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
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    Email
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    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07641

    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: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    head shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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
    • >TC011971 RA
      MIQVLAGVV MLSLSIYIY VSVAPVLYS ERAEISYVF 
      FVIGLCGFN NICCYLFAI KIQRKCLKQ SFKKSTRSL 
      VFAWTCVTF YITIYLCIL AKLTAKVYK HIIRAMGHS 
      FYIGMSKYL KQEEWKVTI DRIQYDMQC CGAQGYREW 
      HQIPWLGRY QVNVKSDSV KQFHENGSW LFPVTPWSC 
      CRLSFPMQC LHDPLQQVG ANHQSLVAD ALNTEGCIT 
      KLKIPIRMA ITTFIILVV LNCLVQLVL FLVVRVLYT 
      SCRNAEILE TDGVAPGWI FGRGDCGYN RGKTLLDYM 
      NPPRRRRRK QQKPAIDEQ DC
    • >TC011971 RB
      MFKYDSMAP VLYSERAEI SYVFFVIGL CGFNNICCY 
      LFAIKIQRK CLKQSFKKS TRSLVFAWT CVTFYITIY 
      LCILAKLTA KVYKHIIRA MGHSFYIGM SKYLKQEEW 
      KVTIDRIQY DMQCCGAQG YREWHQIPW LGRYQVNVK 
      SDSVKQFHE NGSWLFPVT PWSCCRLSF PMQCLHDPL 
      QQVGANHQS LVADALNTE GCITKLKIP IRMAITTFI 
      ILVVLNCLV QLVLFLVVR VLYTSCRNA EILETDGVA 
      PGWIFGRGD CGYNRGKTL LDYMNPPRR RRRKQQKPA 
      IDEQDC
    CDS sequence
    • >TC011971 RA
      atgattcaa gtactagcg ggtgtagtt atgttaagt 
      ttgtcaatc tacatctac gtttcagtg gcaccagtt 
      ttgtattcg gaacgtgca gaaatcagt tacgtattc 
      tttgtaata ggtctgtgt ggctttaac aacatttgc 
      tgttattta ttcgctata aaaatccaa cgaaagtgc 
      ctcaaacaa tcttttaag aaaagtacc cggagtctc 
      gtattcgca tggacgtgt gtcactttt tacatcacg 
      atatatttg tgtatcttg gccaaactc acagccaaa 
      gtgtacaag cacataata cgcgcgatg ggccattcg 
      ttttacatc gggatgagc aaatacttg aagcaagag 
      gagtggaag gtcaccatc gaccgaatc caatacgac 
      atgcagtgc tgcggtgcc cagggctac agagaatgg 
      caccaaatc ccctggctg ggcagatac caagtcaat 
      gtaaaatcc gattcggtt aaacaattt cacgaaaac 
      ggctcttgg ctgtttccg gtaacccca tggagttgc 
      tgtcgacta agcttcccc atgcagtgc cttcatgac 
      cccctgcag caagtgggg gccaaccac cagtccctc 
      gtcgccgac gccctcaac actgaaggg tgcatcacg 
      aaattaaaa ataccgatt cggatggca atcaccact 
      tttattatc ttagtggtc ctgaattgt ctcgtacag 
      ttggtccta tttttggtc gtcagggtg ttgtataca 
      tcttgtcgc aacgcggaa atcctggaa acggatggg 
      gtggcccct ggatggatt tttgggagg ggggattgc 
      ggttataac cgagggaaa accctgctt gactatatg 
      aaccccccg agacggcgt cgccgaaag caacaaaaa 
      ccagccatt gacgagcaa gactgctga
    • >TC011971 RB
      atgtttaaa tatgattca atggcacca gttttgtat 
      tcggaacgt gcagaaatc agttacgta ttctttgta 
      ataggtctg tgtggcttt aacaacatt tgctgttat 
      ttattcgct ataaaaatc caacgaaag tgcctcaaa 
      caatctttt aagaaaagt acccggagt ctcgtattc 
      gcatggacg tgtgtcact ttttacatc acgatatat 
      ttgtgtatc ttggccaaa ctcacagcc aaagtgtac 
      aagcacata atacgcgcg atgggccat tcgttttac 
      atcgggatg agcaaatac ttgaagcaa gaggagtgg 
      aaggtcacc atcgaccga atccaatac gacatgcag 
      tgctgcggt gcccagggc tacagagaa tggcaccaa 
      atcccctgg ctgggcaga taccaagtc aatgtaaaa 
      tccgattcg gttaaacaa tttcacgaa aacggctct 
      tggctgttt ccggtaacc ccatggagt tgctgtcga 
      ctaagcttc cccatgcag tgccttcat gaccccctg 
      cagcaagtg ggggccaac caccagtcc ctcgtcgcc 
      gacgccctc aacactgaa gggtgcatc acgaaatta 
      aaaataccg attcggatg gcaatcacc acttttatt 
      atcttagtg gtcctgaat tgtctcgta cagttggtc 
      ctatttttg gtcgtcagg gtgttgtat acatcttgt 
      cgcaacgcg gaaatcctg gaaacggat ggggtggcc 
      cctggatgg atttttggg aggggggat tgcggttat 
      aaccgaggg aaaaccctg cttgactat atgaacccc 
      ccgagacgg cgtcgccga aagcaacaa aaaccagcc 
      attgacgag caagactgc tga
    mRNA sequence
    • >TC011971 RA
      aacgtaatt ttgtcttgt tatggccat tggggtatt 
      taaattgac taaaaacca gcgacattt cttaagtat 
      aatattcgt atgtttaaa tatgattca agtactagc 
      gggtgtagt tatgttaag tttgtcaat ctacatcta 
      cgtttcagt ggcaccagt tttgtattc ggaacgtgc 
      agaaatcag ttacgtatt ctttgtaat aggtctgtg 
      tggctttaa caacatttg ctgttattt attcgctat 
      aaaaatcca acgaaagtg cctcaaaca atcttttaa 
      gaaaagtac ccggagtct cgtattcgc atggacgtg 
      tgtcacttt ttacatcac gatatattt gtgtatctt 
      ggccaaact cacagccaa agtgtacaa gcacataat 
      acgcgcgat gggccattc gttttacat cgggatgag 
      caaatactt gaagcaaga ggagtggaa ggtcaccat 
      cgaccgaat ccaatacga catgcagtg ctgcggtgc 
      ccagggcta cagagaatg gcaccaaat cccctggct 
      gggcagata ccaagtcaa tgtaaaatc cgattcggt 
      taaacaatt tcacgaaaa cggctcttg gctgtttcc 
      ggtaacccc atggagttg ctgtcgact aagcttccc 
      catgcagtg ccttcatga ccccctgca gcaagtggg 
      ggccaacca ccagtccct cgtcgccga cgccctcaa 
      cactgaagg gtgcatcac gaaattaaa aataccgat 
      tcggatggc aatcaccac ttttattat cttagtggt 
      cctgaattg tctcgtaca gttggtcct atttttggt 
      cgtcagggt gttgtatac atcttgtcg caacgcgga 
      aatcctgga aacggatgg ggtggcccc tggatggat 
      ttttgggag gggggattg cggttataa ccgagggaa 
      aaccctgct tgactatat gaacccccc gagacggcg 
      tcgccgaaa gcaacaaaa accagccat tgacgagca 
      agactgctg ataatgatt agcggtgct ttctatccc 
      aatttattt tttatttat atacatata tcatgtaag 
      gatgtatac ataagctga agaaacgaa tacgaaaca 
      a
    • >TC011971 RB
      aacgtaatt ttgtcttgt tatggccat tggggtatt 
      taaattgac taaaaacca gcgacattt cttaagtat 
      aatattcgt atgtttaaa tatgattca atggcacca 
      gttttgtat tcggaacgt gcagaaatc agttacgta 
      ttctttgta ataggtctg tgtggcttt aacaacatt 
      tgctgttat ttattcgct ataaaaatc caacgaaag 
      tgcctcaaa caatctttt aagaaaagt acccggagt 
      ctcgtattc gcatggacg tgtgtcact ttttacatc 
      acgatatat ttgtgtatc ttggccaaa ctcacagcc 
      aaagtgtac aagcacata atacgcgcg atgggccat 
      tcgttttac atcgggatg agcaaatac ttgaagcaa 
      gaggagtgg aaggtcacc atcgaccga atccaatac 
      gacatgcag tgctgcggt gcccagggc tacagagaa 
      tggcaccaa atcccctgg ctgggcaga taccaagtc 
      aatgtaaaa tccgattcg gttaaacaa tttcacgaa 
      aacggctct tggctgttt ccggtaacc ccatggagt 
      tgctgtcga ctaagcttc cccatgcag tgccttcat 
      gaccccctg cagcaagtg ggggccaac caccagtcc 
      ctcgtcgcc gacgccctc aacactgaa gggtgcatc 
      acgaaatta aaaataccg attcggatg gcaatcacc 
      acttttatt atcttagtg gtcctgaat tgtctcgta 
      cagttggtc ctatttttg gtcgtcagg gtgttgtat 
      acatcttgt cgcaacgcg gaaatcctg gaaacggat 
      ggggtggcc cctggatgg atttttggg aggggggat 
      tgcggttat aaccgaggg aaaaccctg cttgactat 
      atgaacccc ccgagacgg cgtcgccga aagcaacaa 
      aaaccagcc attgacgag caagactgc tgataatga 
      ttagcggtg ctttctatc ccaatttat tttttattt 
      atatacata tatcatgta aggatgtat acataagct 
      gaagaaacg aatacgaaa caa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY