Status
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Gene information
General information
TC006643 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: 12293271..12321411
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
    TC006643
    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_04185

    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
    ovary without detectable defects - Number of animals showing the phenotype: 4
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 90.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


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


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


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion not fulfilled (not completely eclosed) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006643 RA
      MNLINMDAE NRVVLNVGG IRHETYKAT LKKIPATRL 
      SRLTEALAN YDPILNEYF FDRHPGVFA QVLNYYRTG 
      KLHYPSDVC GPLFEEELE FWGLDANQV EPCCWMTYT 
      QHRDTQETL AVLDRLDLD TDKPSDEEI ARKFGFEED 
      YFKGTLSWW QMIKPKIWS LFDEPYSST AAKVIGVLS 
      VFFICVSIL SFCLKTHPD MKVPVIKTV AVRTASNGT 
      DFVIDKTDT DAHVAFFYI ECICNAWFT FEILIRFIA 
      SPNKCEFIN SSVNIIDYI ATASFYIDL ILRRYAAHL 
      ENADIMEFF SIIRIMRLF KLTRHSSGL KILIQTFRA 
      SAKELTLLV FFLVLGIVI FASLVYYAE RIQTNPDND 
      FKSIPLGLW WALVTMTTV GYGDMVPKT YIGMFVGAL 
      CALAGVLTI ALPVPVIVS NFAMYYSHT QARAKLPKK 
      RRRVLPVEP TRGPRLPGQ APAQPPGPV APSAQNRRM 
      NAVKSNHPK DMMGGPGPK MGVMSVVTS SLNPNGLES 
      NPAVMICKP KEFSSSQVN LAQGSTQCY TTLKAAKDL 
      TLQE
    CDS sequence
    • >TC006643 RA
      atgaatctg atcaatatg gatgccgaa aatcgggtg 
      gtcctcaac gtcggaggc atccgtcat gagacctac 
      aaggccacc ttgaagaaa atcccggcg actagatta 
      tcacggctg actgaagcc ttggccaac tacgatccg 
      atactcaac gagtatttt ttcgaccgg catcccgga 
      gttttcgcg caggttctc aattattac agaactggc 
      aagctccac tacccttcg gacgtatgc ggccccttg 
      ttcgaggaa gagctggaa ttctggggt ctggacgcc 
      aaccaggtc gagccatgt tgttggatg acatacact 
      caacatcga gacacccag gagaccctc gccgtcctt 
      gatcgtctg gatttggac accgacaag cccagcgac 
      gaggaaata gcacggaaa tttggcttt gaagaggat 
      tatttcaaa ggcaccctc tcctggtgg cagatgatc 
      aagccgaag atttggtcg cttttcgat gagccgtac 
      tcatcgacg gccgcaaaa gtcataggt gtcctatca 
      gtatttttc atctgcgtt tccatcctc tcgttctgt 
      ttgaagact catcccgac atgaaagtg cccgtcata 
      aaaaccgta gccgtccgg actgcgagc aatgggaca 
      gatttcgtc atcgataaa acagacact gatgctcat 
      gtcgctttt ttctacatc gagtgcatc tgcaatgca 
      tggttcacg ttcgagatc ctgattcgc ttcatcgcc 
      tcgcctaac aaatgcgaa ttcatcaat tcatcggtg 
      aacataatc gactacatc gccaccgcg tcgttctac 
      atcgatttg atcctccgt cggtacgcg gcccactta 
      gaaaacgcc gacataatg gaattcttt tcaataatt 
      cgaatcatg cgactgttt aaactgact cgacattcg 
      tccggattg aaaattttg atccagacg ttccgcgcc 
      tccgccaaa gaactgacc cttttagtg ttttttctt 
      gtgttaggt atagtgatt tttgctagt ttggtctac 
      tacgcggag aggatacag accaatccc gacaacgac 
      ttcaaaagc attccgttg ggactgtgg tgggcactg 
      gtgaccatg accacagtc gggtacggt gacatggtg 
      ccaaagaca tacatcggc atgtttgta ggcgctttg 
      tgcgccctt gccggtgtc ttaaccatc gcacttccg 
      gttccggtc atcgtttcc aactttgcc atgtactac 
      agccacacg caggcccgc gccaaattg ccgaaaaaa 
      cgtcgccgc gtccttccc gtggagcca acgcgaggt 
      cctcgactt ccggggcaa gcccctgcc cagcctccc 
      ggtcctgtc gctccttcc gcacagaat cggcgaatg 
      aacgccgta aaatcgaat catcccaaa gacatgatg 
      ggtgggccc ggtcccaaa atgggtgta atgagtgta 
      gtgacgtcg tcgctgaat cccaacggc ttggaatcg 
      aatccagct gtgatgatc tgcaagccc aaggagttc 
      tcttcgagt caagtgaac ctggcccaa ggctcgacc 
      caatgctac accacactc aaagctgcc aaagacctt 
      actttacag gaatga
    mRNA sequence
    • >TC006643 RA
      tcacgcaac ctgaaaagg ggtggcgtc tgcatgcgt 
      caaaattac cccccgccc ccatctgcc gccgccacc 
      gccaccgcc agtgtgttt cagagcggc ggcgggact 
      ccgtgctcg tttcgacgc cgaaaacgc gctgaaaat 
      ctcataaaa aaacacatt ttcgatagt gttcaattc 
      acgtgtgtt gtggtgaaa aactgaaaa ggtgatcga 
      tacaagtgt cggtttttc accgctgaa acattaatt 
      aatcgcctg aaatgacgc tggaatgtc actggtgaa 
      aaaatgcca aggtacgac tgacaaggc ggaaaagca 
      caacacgaa aaagcgaaa gcgtcctcg agcttgaca 
      caatggatt tgcggccgt aacgcgaca ctaatccgg 
      taagttttc agtttcagg tgtcgaaaa atcctgaaa 
      aatacatgc attttttcc acagccatc atgaatctg 
      atcaatatg gatgccgaa aatcgggtg gtcctcaac 
      gtcggaggc atccgtcat gagacctac aaggccacc 
      ttgaagaaa atcccggcg actagatta tcacggctg 
      actgaagcc ttggccaac tacgatccg atactcaac 
      gagtatttt ttcgaccgg catcccgga gttttcgcg 
      caggttctc aattattac agaactggc aagctccac 
      tacccttcg gacgtatgc ggccccttg ttcgaggaa 
      gagctggaa ttctggggt ctggacgcc aaccaggtc 
      gagccatgt tgttggatg acatacact caacatcga 
      gacacccag gagaccctc gccgtcctt gatcgtctg 
      gatttggac accgacaag cccagcgac gaggaaata 
      gcacggaaa tttggcttt gaagaggat tatttcaaa 
      ggcaccctc tcctggtgg cagatgatc aagccgaag 
      atttggtcg cttttcgat gagccgtac tcatcgacg 
      gccgcaaaa gtcataggt gtcctatca gtatttttc 
      atctgcgtt tccatcctc tcgttctgt ttgaagact 
      catcccgac atgaaagtg cccgtcata aaaaccgta 
      gccgtccgg actgcgagc aatgggaca gatttcgtc 
      atcgataaa acagacact gatgctcat gtcgctttt 
      ttctacatc gagtgcatc tgcaatgca tggttcacg 
      ttcgagatc ctgattcgc ttcatcgcc tcgcctaac 
      aaatgcgaa ttcatcaat tcatcggtg aacataatc 
      gactacatc gccaccgcg tcgttctac atcgatttg 
      atcctccgt cggtacgcg gcccactta gaaaacgcc 
      gacataatg gaattcttt tcaataatt cgaatcatg 
      cgactgttt aaactgact cgacattcg tccggattg 
      aaaattttg atccagacg ttccgcgcc tccgccaaa 
      gaactgacc cttttagtg ttttttctt gtgttaggt 
      atagtgatt tttgctagt ttggtctac tacgcggag 
      aggatacag accaatccc gacaacgac ttcaaaagc 
      attccgttg ggactgtgg tgggcactg gtgaccatg 
      accacagtc gggtacggt gacatggtg ccaaagaca 
      tacatcggc atgtttgta ggcgctttg tgcgccctt 
      gccggtgtc ttaaccatc gcacttccg gttccggtc 
      atcgtttcc aactttgcc atgtactac agccacacg 
      caggcccgc gccaaattg ccgaaaaaa cgtcgccgc 
      gtccttccc gtggagcca acgcgaggt cctcgactt 
      ccggggcaa gcccctgcc cagcctccc ggtcctgtc 
      gctccttcc gcacagaat cggcgaatg aacgccgta 
      aaatcgaat catcccaaa gacatgatg ggtgggccc 
      ggtcccaaa atgggtgta atgagtgta gtgacgtcg 
      tcgctgaat cccaacggc ttggaatcg aatccagct 
      gtgatgatc tgcaagccc aaggagttc tcttcgagt 
      caagtgaac ctggcccaa ggctcgacc caatgctac 
      accacactc aaagctgcc aaagacctt actttacag 
      gaatgaagt gctttcgtt tcatttgta cagtagcat 
      atcgtgata cgtagtatt aagggggcg tatatcaca 
      ctcggcata tctcggggg gtgggacca atcagtatg 
      cacaaaaac taagtgtta ggagaaacc aattctaga 
      tgtaactcc cggctattg tccaccatt ctaaatttc 
      tcgatttct cctcattgt tattgttgt aaattaagg 
      gtccatgtt gaatttaca aagtttatg gcgggttta 
      tatatcaca tatctttgc gtttcgaat tcggaccaa 
      gaaattttt taacgatca ttgtgatac acgaggttt 
      tttcggtta ggaggggtt tcaatcgct gtattactg 
      attcagatt ttggccttt gctctttac tgtaatata 
      atgtagatc tagggttaa ataagcgac tgtattact 
      aaataacta aattgagac actcaactc tcaactaaa 
      cgatagaaa tactgctcg tattacact cacaggcaa 
      gtgtaataa ctgcagtat tgcattgta ttatagtaa 
      taataaatt taaataaat gacaaaaca aatatttcc 
      atgttacga gcgactttg ttatatata cacattaaa 
      cattgtaat aagtacact tatttcacc ttctcacca 
      cgtaattat acgataagt tgttggatt cttcctgta 
      catgatata aattgtaga aatttcgat aaataaatc 
      atacaaaat taa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY