Status
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Gene information
General information
TC011542 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: 3725032..3727289
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
    TC011542
    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
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    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_05053

    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


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: 2 - Number of animals showing the phenotype: 1
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: - Number of animals showing the phenotype: 1
    ovary without detectable defects - Number of animals showing the phenotype: 2
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 75.0% (includes death as larva, prepupa, pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 4 (19 dpi)
    Days post injection


    Pupal morphology
    wings not closed - Number of animals showing the phenotype: 10

    wings size decreased - Number of animals showing the phenotype: 10
    oblique dorsal thoracic muscles shortened - Number of animals showing the phenotype: 10

    longitudinal dorsal thoracic muscles fluorescence decreased - Number of animals showing the phenotype: 10
    Adult morphology
    elytra not closed - Number of animals showing the phenotype: 6


    elytra surface irregular - Number of animals showing the phenotype: 6

    elytra size shortened - Number of animals showing the phenotype: 6

    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011542 RA
      MEKVYPSID DLSNVNKKS CPECSALFN SDSNLNLHL 
      AKTHKKPKL LEPTNPNKI FYCPITTCS YHNTSHFKQ 
      FKPLKQHFL KVHSDKNFL CTLCQKGFA TESSRNKHT 
      EYCDVAFKC CDCDVSYSC YETLKTHSR RKKHNILEK 
      VAYKTSLPP SVKNPKSDD SLATNRLRL ILPKPSNST 
      GMIDTSEQS VQTDKSNNS QETQTFLAA RLPQFTVET 
      QTIGDYFTK KPVKSTELK NIKTQTIAP VAKTSSCNT 
      LFNLDDFVL SVMEDMQRS SSSTQTNIC EESENIYSA 
      STSTHDSIH TDTSDLLND TFDSNFFNM ETQTDFDDL 
      FKYCDDYSN MYTQTCHEL LLGKIGLND TQTQTVFDD 
      VLKSVESQT VMSQFKVLP ASCKDNATH METQTDTHF 
      MQMLEEINA
    CDS sequence
    • >TC011542 RA
      atggaaaaa gtgtacccc agcattgac gacttgagc 
      aacgtgaat aagaaaagt tgtcccgaa tgctccgca 
      ttattcaac tccgactcc aacctcaac ctccacttg 
      gccaagacc cacaaaaag cccaagctt ttggaaccc 
      actaacccc aacaaaatt ttctactgc cctattacc 
      acgtgttct taccacaac acgtcacat ttcaagcag 
      tttaagccc ctgaaacaa catttcttg aaagtgcac 
      tctgacaag aattttctc tgcaccctg tgccagaaa 
      ggctttgcc accgaatcg tcccgcaac aaacatacg 
      gaatattgc gacgttgcg ttcaaatgt tgcgactgc 
      gacgtgtcg tactcgtgc tacgagacg ttgaaaaca 
      cacagtcgg cgtaaaaaa cacaacatt cttgaaaaa 
      gtcgcctac aaaacgtca ctgcctcca agtgtgaaa 
      aacccaaag agtgacgac tctttggcc acgaacaga 
      ctgagactc attcttccg aagccttcc aacagcact 
      ggaatgatt gacacgtcc gagcaaagc gtccagaca 
      gataagtcc aacaacagt caagaaacg cagacgttt 
      ctggccgcc aggttgccc cagttcacc gttgagacg 
      caaaccatc ggcgattat ttcaccaaa aaaccggtc 
      aagtccacg gaattgaaa aatatcaag actcaaacc 
      atcgccccc gtggctaaa acctcctcg tgcaacact 
      ttgttcaat ttggacgat ttcgtgcta agtgtgatg 
      gaagatatg cagagaagt tcgtccagt acccagact 
      aacatttgc gaggagtcg gagaatatt tattcggcc 
      tcaactagc acgcatgac tccatacat acggacact 
      tctgatttg ttgaatgac acgtttgac tcgaatttc 
      ttcaatatg gagacgcag accgacttt gacgacttg 
      ttcaagtac tgtgatgac tacagcaat atgtacaca 
      cagacttgc cacgaactg ttgttgggt aaaattgga 
      ctaaacgac actcagacc caaactgtc tttgacgat 
      gttctcaaa tcggtggaa agtcagacg gtgatgtcg 
      caatttaag gtcctacca gcgagttgt aaggacaat 
      gccacccat atggaaaca cagactgat acgcacttc 
      atgcaaatg ctggaggag ataaatgcc tga
    mRNA sequence
    • >TC011542 RA
      aatgttatt tatttaacc caaaaataa ataatttgg 
      gacttaccg gtgtcacat tcggtgttg catcttgca 
      gactttttg tgagcaagg gaaagtacc cttttacaa 
      aaaagtcgc aaaaagttc gtatgactt ctccaattt 
      tctgaaaac atggacatt tttgcacag tgcgtgtta 
      tctctctac caagtgagt gacattgct tacgtgtcc 
      taatttaca aaaatggta attaccttg catttgaat 
      atgggttgt aaaaactgc cacaaatgc atatcacat 
      ctcacacca aagattttg cacaattaa cttttaatt 
      ttgacgaaa cgaagttcg taaagtgga aaatgacac 
      gataacgac taatcacaa aaactgcca taaaaaatc 
      gtggggtag gcggagaat tcgattagc gtttgtaaa 
      caattgacg ccgaaaaat tttcgttgt cttttacaa 
      aaaattact aatttcatt cacaaaagg cgcaaaaaa 
      ttcatcaat catggaaaa agtgtaccc cagcattga 
      cgacttgag caacgtgaa taagaaaag ttgtcccga 
      atgctccgc attattcaa ctccgactc caacctcaa 
      cctccactt ggccaagac ccacaaaaa gcccaagct 
      tttggaacc cactaaccc caacaaaat tttctactg 
      ccctattac cacgtgttc ttaccacaa cacgtcaca 
      tttcaagca gtttaagcc cctgaaaca acatttctt 
      gaaagtgca ctctgacaa gaattttct ctgcaccct 
      gtgccagaa aggctttgc caccgaatc gtcccgcaa 
      caaacatac ggaatattg cgacgttgc gttcaaatg 
      ttgcgactg cgacgtgtc gtactcgtg ctacgagac 
      gttgaaaac acacagtcg gcgtaaaaa acacaacat 
      tcttgaaaa agtcgccta caaaacgtc actgcctcc 
      aagtgtgaa aaacccaaa gagtgacga ctctttggc 
      cacgaacag actgagact cattcttcc gaagccttc 
      caacagcac tggaatgat tgacacgtc cgagcaaag 
      cgtccagac agataagtc caacaacag tcaagaaac 
      gcagacgtt tctggccgc caggttgcc ccagttcac 
      cgttgagac gcaaaccat cggcgatta tttcaccaa 
      aaaaccggt caagtccac ggaattgaa aaatatcaa 
      gactcaaac catcgcccc cgtggctaa aacctcctc 
      gtgcaacac tttgttcaa tttggacga tttcgtgct 
      aagtgtgat ggaagatat gcagagaag ttcgtccag 
      tacccagac taacatttg cgaggagtc ggagaatat 
      ttattcggc ctcaactag cacgcatga ctccataca 
      tacggacac ttctgattt gttgaatga cacgtttga 
      ctcgaattt cttcaatat ggagacgca gaccgactt 
      tgacgactt gttcaagta ctgtgatga ctacagcaa 
      tatgtacac acagacttg ccacgaact gttgttggg 
      taaaattgg actaaacga cactcagac ccaaactgt 
      ctttgacga tgttctcaa atcggtgga aagtcagac 
      ggtgatgtc gcaatttaa ggtcctacc agcgagttg 
      taaggacaa tgccaccca tatggaaac acagactga 
      tacgcactt catgcaaat gctggagga gataaatgc 
      ctgactata atggaaatt tctttggtt ttgttgaag 
      gagcaaatt ctaatctcg ctttggaaa ctgttcaat 
      tttacaaat tttccattc ttaccttgt aaccatttt 
      taatgggaa gtaacaata aattttcta ctacgcaat 
      gaaagggtt tttgttcat ttaaggcct taattttgg 
      acaaccagt cgtgaattt aatgggtgc aaagattaa 
      ttagaaatt tgtgtatga tactgacag gagagaacg 
      aagaataaa agaagtaac taatgacag gggaggtgt 
      ctaaaaaat taaaagtgt gaaagctag gtgattcag 
      agatgatgg aactgagaa gaagagggt tcacggaat 
      aagagaggg tacgtaaaa atggaagca gttaaaaac 
      tacagaaaa gtaaacatt ttaaaaacg aaaacaaaa 
      tcacatgct tatgtgaat ataaaattt aaaataaat 
      ttttaagca gtaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY