Status
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Gene information
General information
TC013893 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_007420.3: 339647..348872
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
    TC013893
    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_02221

    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: 30.0% (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


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 30.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - 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: 2 (16 dpi)
    Days post injection



    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013893 RA
      MVQFTRRQW LTLIVIGIA DFCNAICVS LQAPFYPAE 
      AERKGCSAT EYGLVFGIF ELIVFVISP VYGQHLNKI 
      GPKVTFNGG IYTTGICAI LFGLLDKIE GHYPFIILS 
      FIIRIVEAM GNAAFLTAS FAIIAKEFP DNVATTFAS 
      LETFFGLGL IVGPTVGGA LYQVGGYTL PFAVMGSAL 
      FMSAILTAF VLPKHEDGT DRDKGPSMF KAVKIPGVL 
      LSCGSIIVT SMSIGFLQA TLEPHLRQF FLSPVILGL 
      MFVINGGTY AVTAPGFGM LCDKFCPPK VITVLGTVL 
      VAAGFTLVG PAPFIPVQT MLWITILGL VLHGLGIAA 
      QLVASFTDA LRTSIAHGF PNNLETFGL ISGLWTSTF 
      ALGAFIGPS ISGILYDNI GFRNASMFI VGIHLFIGF 
      AVSLYLIFT KRPQTYVEL KEEKLVANG DVDTSYTKS 
      QQASVTESV KSIRSVGNG ISIEKSRPP AMNSLIACN 
      SYKSQAWPK RDANSLTFG RYSYSYGTV DQNGATTSY 
      LAGVA
    CDS sequence
    • >TC013893 RA
      atggtgcag ttcacaaga cgccagtgg cttactttg 
      atagttatc gggatcgca gacttttgc aatgccatt 
      tgtgtctcc ctacaagcg cccttctac ccagctgag 
      gcggaacga aaaggctgc tcagcgact gaatacggc 
      ctagtcttc ggaattttt gagctaatt gttttcgta 
      attagtcca gtttatggc caacatttg aataaaatc 
      gggcctaaa gtaacgttc aatgggggc atctacacc 
      accggaatt tgcgccatt ttattcggc cttttggac 
      aaaatcgag ggccattat ccgttcatt attttgagt 
      tttatcatt cggattgtt gaagctatg ggcaatgct 
      gcatttctc acagccagt tttgccatc attgccaaa 
      gaatttcca gataatgtt gcgacaact tttgcctct 
      ttggaaacg tttttcggg cttggactt atcgtaggt 
      cccactgta ggaggggcc ctttatcaa gtggggggc 
      tacacactt ccgttcgct gtcatgggc tctgcgctc 
      ttcatgtcg gctatctta actgctttt gtcttacca 
      aaacacgaa gatgggacc gatcgggat aaaggaccc 
      tcgatgttc aaagctgtg aaaatacca ggagtgctt 
      ttgtcttgt ggaagtatc attgtaacg agcatgtcg 
      attggattt ctacaagca accctcgag ccgcatttg 
      cgtcaattt ttcttatcc cccgttatt ttggggttg 
      atgtttgtc ataaatggg ggtacttat gcggtcaca 
      gcccccggt tttggaatg ctctgtgat aaattctgc 
      cccccgaaa gtgataacc gttttgggg actgtgcta 
      gtggctgcg ggattcact cttgtggga ccagcacct 
      tttatcccc gtgcaaacg atgttgtgg attactatt 
      ttgggcttg gtgttacat gggttgggg attgcggcc 
      cagttggtc gcctccttc acagacgct ctcaggact 
      agtatagcc catggtttt ccgaataat ttggaaacg 
      ttcggttta atctcaggc ctttggacc agcacgttt 
      gcacttggg gctttcatt gggccgtcg atcagtggt 
      atactttac gacaacatt ggattcagg aatgcttca 
      atgtttatc gtcggcatc caccttttt atcggcttc 
      gcggtttcc ctctactta atcttcaca aagaggcca 
      cagacttat gttgaactt aaagaggag aaacttgtg 
      gctaatggc gatgttgat acgagttac accaagtcg 
      cagcaagcc agtgttacc gaaagtgtg aaaagtatc 
      cgatcggtg ggtaatgga atttcaata gaaaagagt 
      cgaccgcca gcaatgaac agtctgatt gcgtgtaat 
      agttacaag agtcaagct tggcctaaa agagatgcc 
      aatagtttg acttttggg aggtatagc tacagttat 
      ggtaccgtt gatcaaaat ggggcaact acgtcttac 
      ctggcaggg gttgcttaa
    mRNA sequence
    • >TC013893 RA
      aaccaaatc gaattttgc gttcgaatt cttcagtgt 
      gagtcgagt gacaatgcc acttttggc aatatggta 
      aatcgcgtt ttcttctac aacaactat ctcatcctc 
      gtcgagtta tcctacttc tatctgagt ttgtgacaa 
      aaatatcgt gcaaaaaac ttatcagtt aaaatggtg 
      cagttcaca agacgccag tggcttact ttgatagtt 
      atcgggatc gcagacttt tgcaatgcc atttgtgtc 
      tccctacaa gcgcccttc tacccagct gaggcggaa 
      cgaaaaggc tgctcagcg actgaatac ggcctagtc 
      ttcggaatt tttgagcta attgttttc gtaattagt 
      ccagtttat ggccaacat ttgaataaa atcgggcct 
      aaagtaacg ttcaatggg ggcatctac accaccgga 
      atttgcgcc attttattc ggccttttg gacaaaatc 
      gagggccat tatccgttc attattttg agttttatc 
      attcggatt gttgaagct atgggcaat gctgcattt 
      ctcacagcc agttttgcc atcattgcc aaagaattt 
      ccagataat gttgcgaca acttttgcc tctttggaa 
      acgtttttc gggcttgga cttatcgta ggtcccact 
      gtaggaggg gccctttat caagtgggg ggctacaca 
      cttccgttc gctgtcatg ggctctgcg ctcttcatg 
      tcggctatc ttaactgct tttgtctta ccaaaacac 
      gaagatggg accgatcgg gataaagga ccctcgatg 
      ttcaaagct gtgaaaata ccaggagtg cttttgtct 
      tgtggaagt atcattgta acgagcatg tcgattgga 
      tttctacaa gcaaccctc gagccgcat ttgcgtcaa 
      tttttctta tcccccgtt attttgggg ttgatgttt 
      gtcataaat gggggtact tatgcggtc acagccccc 
      ggttttgga atgctctgt gataaattc tgccccccg 
      aaagtgata accgttttg gggactgtg ctagtggct 
      gcgggattc actcttgtg ggaccagca ccttttatc 
      cccgtgcaa acgatgttg tggattact attttgggc 
      ttggtgtta catgggttg gggattgcg gcccagttg 
      gtcgcctcc ttcacagac gctctcagg actagtata 
      gcccatggt tttccgaat aatttggaa acgttcggt 
      ttaatctca ggcctttgg accagcacg tttgcactt 
      ggggctttc attgggccg tcgatcagt ggtatactt 
      tacgacaac attggattc aggaatgct tcaatgttt 
      atcgtcggc atccacctt tttatcggc ttcgcggtt 
      tccctctac ttaatcttc acaaagagg ccacagact 
      tatgttgaa cttaaagag gagaaactt gtggctaat 
      ggcgatgtt gatacgagt tacaccaag tcgcagcaa 
      gccagtgtt accgaaagt gtgaaaagt atccgatcg 
      gtgggtaat ggaatttca atagaaaag agtcgaccg 
      ccagcaatg aacagtctg attgcgtgt aatagttac 
      aagagtcaa gcttggcct aaaagagat gccaatagt 
      ttgactttt gggaggtat agctacagt tatggtacc 
      gttgatcaa aatggggca actacgtct tacctggca 
      ggggttgct taaatgttt gtgttttta tcatgtact 
      ttaggacaa tatagttaa atggtttta atttttgta 
      aattttata aatactgaa cataattta atacattgt 
      aagaaccca tttgtataa tacaacata agttattgc 
      agattacga aatgtatca ttgtataga aataaacaa 
      ttttatttt ttgcactag gtttctctt acaaaaatc 
      aattttaac agagttgca atgtagaaa aaacataga 
      aaaataaaa caaaatcaa tgtttcgta cctcaataa 
      atttctttg taacaacaa atcaaaaac tctctgaat 
      tacaaacaa gtaacccca tttcaagaa acattttca 
      agcagtttc gattgattt tgtggaaac aaccttaaa 
      agttaataa agttaaata agaaaa
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