Status
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Gene information
General information
TC005675 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_007423.3: 9776117..9793680
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
    TC005675
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03998

    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


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    larva constricted - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    Pupal morphology
    oblique dorsal thoracic muscles size shortened - Number of animals showing the phenotype: 6

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005675 RA
      MEHSELIQE MPHIEQMPT QERLILARK RRNQQLKLW 
      LQKEKEFNR KTPKQQKSN KRSIFFNDS VVLLEAAAR 
      NDIDEVRRL LMKGVSPDS CNEDGLTAL HQCCIDNNE 
      AMLLLLLEY NANVNAEDS EKWTPLHAA ATCGHLKLV 
      RILISRGAN LLAVNADGN MPYDICEDE AALDYIEGE 
      MAKRGVTQQ LIDDTRAAT EKQMLADCR KIASSGGDL 
      EAYDSQGAT PLHIAAANG YLTVVEFLL DHNVRTDVR 
      DKDDWQPSH AAACWGHVE VLEMLAQAG ADLNAKNKH 
      DETPADICE DPEIKERIL ELRTEQEIK RQAEAKRKV 
      RRSQSNTRT QSVRRTSLR DKGLTARRD AVEEARLRL 
      QAENKGLDT SEPSPPIQP PVNNNKSPP YSTNNNPEP 
      VKEDSTALQ IIENRKAPE GKDNDSMLE NHVMDTKEN 
      SYTTDVNGK VTVHVVVTI NGNGTLADL KKQRMQIRN 
      NSSDVNSIT SPMGSITDE TSPSPVTAD IVRFTGETA 
      EENVGYAKS KRCCVVQ
    CDS sequence
    • >TC005675 RA
      atggagcat tccgaactt atccaggaa atgccccac 
      attgagcag atgcccaca caagaacga ctaatctta 
      gcacgcaaa agaagaaac caacaactc aagctatgg 
      ctgcaaaag gagaaagag ttcaacagg aagacgccc 
      aaacaacag aaatcgaac aaaaggagt atttttttt 
      aacgacagt gttgtgctt ctggaagcg gcagcgagg 
      aatgacatc gatgaagtc agacgactc ctcatgaag 
      ggtgtgagc ccagattcg tgcaacgaa gacggcttg 
      acagctttg caccaatgc tgcattgac aacaacgaa 
      gccatgctc cttctcctt ctggaatac aacgccaac 
      gtaaacgcc gaagacagc gaaaaatgg acgccgtta 
      catgccgcc gcgacgtgc ggtcattta aaattagtc 
      agaattctc atatctcga ggcgcaaat ttgctcgcc 
      gtcaacgcc gacggaaat atgccctat gatatttgc 
      gaagacgaa gcagcttta gattatatc gagggagaa 
      atggccaaa cggggagtc actcaacag ttgatagac 
      gacacgaga gcagccacc gaaaaacaa atgttggcc 
      gattgcagg aaaattgct tccagtggg ggagatctg 
      gaagcgtac gactcgcaa ggggccaca ccgctccac 
      atcgccgcc gcaaatggc tatttaacc gtcgttgaa 
      tttttatta gaccacaat gttcggaca gatgttcgg 
      gacaaggac gattggcag ccgtcacac gctgctgct 
      tgttggggc cacgttgaa gttttggaa atgttagca 
      caagccgga gccgatctc aacgccaaa aacaaacac 
      gacgagact ccggcggac atttgcgag gatcccgaa 
      attaaggaa cgtatattg gagttaagg actgaacag 
      gagattaag agacaagcg gaagccaag aggaaagtc 
      aggcgatcg cagagcaat acacgaacg cagtccgtt 
      cggaggact tcactgaga gataaagga cttacggca 
      cggagggat gctgtggag gaggccagg cttaggctg 
      caggccgaa aataagggt ttggacacc tcggagccc 
      agcccccct atccagccc cctgtcaac aataacaag 
      tcgcccccg tacagtaca aacaacaac cctgagccg 
      gtgaaagag gactcgaca gctttgcaa ataatcgaa 
      aaccggaaa gctcccgaa ggaaaagac aacgattca 
      atgctggaa aatcatgtg atggacact aaagaaaat 
      tcctatacg actgacgtc aacggaaaa gtgactgtt 
      cacgtggtg gtcactatt aacggtaac ggcactttg 
      gccgacttg aagaaacag cggatgcaa attcggaac 
      aattcttca gatgttaac agcattaca tcgccaatg 
      ggaagcatc acagatgag actagtccc agtcctgtc 
      actgcagat atcgtccga ttcactgga gagactgcc 
      gaggaaaac gttggctat gccaagtcc aagaggtgc 
      tgtgttgtc cagtag
    mRNA sequence
    • >TC005675 RA
      cgcggtaga ttcgcgcag gtagttggt gaaagaacg 
      taaactcgt aaaatgcag tggagctta tccgaaaac 
      cgttccttc caacgcact gtggtgtac acatctgcg 
      atgtttttg tgataaaat gtggaaaat tcgaaaaaa 
      atgtgcgaa ttattgtcg ataaaactg tgcgttcaa 
      attacatgt ggactttca gtgacgact gcgatgtgt 
      aggacttaa aaatgcggc taacctgtt tagaaaggg 
      tttgatgtg atttcccga ccttttaaa aaaactatc 
      accaaaatg gagcattcc gaacttatc caggaaatg 
      ccccacatt gagcagatg cccacacaa gaacgacta 
      atcttagca cgcaaaaga agaaaccaa caactcaag 
      ctatggctg caaaaggag aaagagttc aacaggaag 
      acgcccaaa caacagaaa tcgaacaaa aggagtatt 
      ttttttaac gacagtgtt gtgcttctg gaagcggca 
      gcgaggaat gacatcgat gaagtcaga cgactcctc 
      atgaagggt gtgagccca gattcgtgc aacgaagac 
      ggcttgaca gctttgcac caatgctgc attgacaac 
      aacgaagcc atgctcctt ctccttctg gaatacaac 
      gccaacgta aacgccgaa gacagcgaa aaatggacg 
      ccgttacat gccgccgcg acgtgcggt catttaaaa 
      ttagtcaga attctcata tctcgaggc gcaaatttg 
      ctcgccgtc aacgccgac ggaaatatg ccctatgat 
      atttgcgaa gacgaagca gctttagat tatatcgag 
      ggagaaatg gccaaacgg ggagtcact caacagttg 
      atagacgac acgagagca gccaccgaa aaacaaatg 
      ttggccgat tgcaggaaa attgcttcc agtggggga 
      gatctggaa gcgtacgac tcgcaaggg gccacaccg 
      ctccacatc gccgccgca aatggctat ttaaccgtc 
      gttgaattt ttattagac cacaatgtt cggacagat 
      gttcgggac aaggacgat tggcagccg tcacacgct 
      gctgcttgt tggggccac gttgaagtt ttggaaatg 
      ttagcacaa gccggagcc gatctcaac gccaaaaac 
      aaacacgac gagactccg gcggacatt tgcgaggat 
      cccgaaatt aaggaacgt atattggag ttaaggact 
      gaacaggag attaagaga caagcggaa gccaagagg 
      aaagtcagg cgatcgcag agcaataca cgaacgcag 
      tccgttcgg aggacttca ctgagagat aaaggactt 
      acggcacgg agggatgct gtggaggag gccaggctt 
      aggctgcag gccgaaaat aagggtttg gacacctcg 
      gagcccagc ccccctatc cagccccct gtcaacaat 
      aacaagtcg cccccgtac agtacaaac aacaaccct 
      gagccggtg aaagaggac tcgacagct ttgcaaata 
      atcgaaaac cggaaagct cccgaagga aaagacaac 
      gattcaatg ctggaaaat catgtgatg gacactaaa 
      gaaaattcc tatacgact gacgtcaac ggaaaagtg 
      actgttcac gtggtggtc actattaac ggtaacggc 
      actttggcc gacttgaag aaacagcgg atgcaaatt 
      cggaacaat tcttcagat gttaacagc attacatcg 
      ccaatggga agcatcaca gatgagact agtcccagt 
      cctgtcact gcagatatc gtccgattc actggagag 
      actgccgag gaaaacgtt ggctatgcc aagtccaag 
      aggtgctgt gttgtccag tagtaaagt actgacagt 
      attttttaa agtttacat tccaaactt gtgataaga 
      gtcgttttg cctaagcga aagcatgta cttaattta 
      atgtgattg gtgttcgta ttttagaga cgttattac 
      tactactta atatttttt aagacggtt cttattcta 
      tttgtactt cctttttgt attcaacaa aagactcgt 
      ttgttgtac tgtcaagtg cctatttta ccaagttca 
      caaatttca gtttttaaa cgaggcctt aatttcgtt 
      taaaataaa ataacacac gctaaatca tgatattgt 
      ttttttgtt taatttaat ttatagcaa taattatgt 
      atgtaaata tgatgagta cttcaactg catagccga 
      aactggtgt acataactt tttatttgt tatttattc 
      gtagattag tgtataaat taattttta tttaaaact 
      actagttgt tacattata caaattaca aacgttata 
      atgaatttt gtatcaaaa tttttccta gaataaatt 
      ttattttgt tgt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY