Status
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Gene information
General information
TC005972 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: 4566201..4575218
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
    TC005972
    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_08862

    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: 2 (3 dpi)
    Days post injection


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


    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: % (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
    • >TC005972 RA
      MDLAPDQDI VMERQGSCL LLRCDSQNS LDESSQKQL 
      PRSGGKDKP PYRNYHHTQ RAFDAMNLL RKQRLLCDV 
      ILVADTVEI PAHKMVLAA CSPYFYAMF TSFEESKQD 
      RIVLQEVDH QALQILVEY VYTSEVQVT EDNVQVLLP 
      AANLLQLTD VRDACCEFL QVQLHPTNC LGIRAFADL 
      HGCLELLAH AESYIEQHF IEVVECEEF LTLSHQQVS 
      KLICSDRLT VPSEEQVFE CVIAWVQHD LDARHKHLA 
      SLMEHVRLP LMSQEYLMQ RVEEEPLLK ADLQCKDYI 
      IEALKYHLL KGDNKTTFR TPRTKPRQP VGLPKVLLV 
      VGGQAPKAI RSVECYDFK EEKWYQVAE MPTRRCRAG 
      LAVLHGKVY AVGGFNGSL RVRTVDVYD AALDQWNTC 
      DHMEARRST LGVAVLGNC IYAVGGFDG STGLNTAEM 
      YDPTTAKWR SIAPMSTRR SSVGVGVLY GILYAVGGY 
      DGASRQCLS SVECYTPEI DCWTSVPDM GCRRSGAGV 
      GVLEGVLYA VGGHDGPQV RKSVEAYDP VKRLWTAVS 
      DMTFCRRNA GVVALNGLL YVVGGDDGC SNLSSVEVY 
      NPKTDTWTL LPSCMGIGR SYAGVAIID KPI
    CDS sequence
    • >TC005972 RA
      atggactta gcgcccgac caagacatt gttatggaa 
      cgccaagga agttgttta ttgctgcgc tgtgacagt 
      caaaactcc ctcgatgaa agctcccag aaacaactg 
      ccgcggtct gggggcaaa gacaagcca ccctatcgc 
      aactaccac cacacacag agggccttt gacgctatg 
      aatctcctg agaaaacaa agactgctg tgcgacgtg 
      attttggtc gcagacacc gttgaaata cccgctcat 
      aagatggtc ctagccgct tgctctccc tatttttac 
      gccatgttt acaagcttt gaggagagc aaacaagac 
      aggattgtt ttgcaggaa gtggaccat caagctttg 
      caaattttg gtcgaatat gtttacacc agcgaagta 
      caagtcact gaggataac gtacaagtg ttgctacca 
      gccgcgaat ttgttacaa ttgactgat gttagggat 
      gcttgttgc gaattttta caggtgcag ttgcaccca 
      actaactgt ttagggatt agggcgttt gctgatcta 
      cacggctgt ttggagctg ctggctcat gccgaatca 
      tacattgag caacatttt attgaggtt gttgagtgt 
      gaagagttc ctaacgttg tcgcatcag caagtttct 
      aagctaatt tgcagtgat agacttacc gtaccttcg 
      gaagaacag gtgttcgaa tgcgtaatt gcttgggtt 
      cagcacgat ttggatgca cgccacaag catttagcc 
      tctttaatg gagcacgtg cgtctcccc ctcatgtcg 
      caagaatac ctgatgcaa cgcgtcgaa gaggagcct 
      ctcctcaaa gccgatttg caatgcaaa gactatata 
      atcgaagct ctgaaatat caccttttg aaaggcgac 
      aacaaaacg acgttccga acccctcga accaaacca 
      cgacagccc gtcggcctc cccaaagtc ctcctcgtc 
      gtcggcggt caagcaccc aaagcgatc cgaagtgtg 
      gagtgttac gatttcaaa gaggagaaa tggtaccaa 
      gtggccgag atgccaaca aggcgctgc cgagccggc 
      ttggcagtc ctccacggc aaagtgtac gccgttggc 
      gggttcaac ggctcgctc cgcgtccga acggtcgat 
      gtttacgat gcagcttta gaccagtgg aacacttgc 
      gaccacatg gaagcccgc cgttcgact ctaggtgtt 
      gcggtttta ggtaattgt atttatgca gtcgggggt 
      tttgacggc tcgactggc ttaaacacc gccgaaatg 
      tacgacccc acaacggcc aaatggcgc tccatcgcc 
      cccatgtcc acccgcagg agcagcgtg ggggtcggg 
      gtgctctac ggcatcttg tacgctgtg gggggctac 
      gacggcgcc tcgcgccag tgcctcagc tccgtcgag 
      tgctacacc cccgagatc gactgctgg acttccgtg 
      cccgacatg gggtgccgc cggagcggg gccggggtg 
      ggggtcctg gagggggtg ctgtacgcc gtggggggg 
      cacgacggc ccccaggtc cgcaagtcc gtggaggcg 
      tacgatccc gtcaagagg ttgtggacg gcggttagt 
      gatatgacg ttctgccga cgcaatgct ggagtcgtt 
      gcgctcaat gggttgttg tatgttgtt gggggcgac 
      gacgggtgc agtaatctc tcgtcggtt gaggtgtac 
      aaccccaag actgacacc tggacgctg ttgccgagc 
      tgcatgggg attggacga agctatgca ggcgtggcg 
      atcattgat aagccgatt tga
    mRNA sequence
    • >TC005972 RA
      gaagtgcgt tttatttca taattttgc aataaaacc 
      ccgaataat tcctcgaat cgtgcagcg atgtgttaa 
      atcacaatt tagctcaat ttaggaaaa aatctattc 
      aagcaatgg acttagcgc ccgaccaag acattgtta 
      tggaacgcc aaggaagtt gtttattgc tgcgctgtg 
      acagtcaaa actccctcg atgaaagct cccagaaac 
      aactgccgc ggtctgggg gcaaagaca agccaccct 
      atcgcaact accaccaca cacagaggg cctttgacg 
      ctatgaatc tcctgagaa aacaaagac tgctgtgcg 
      acgtgattt tggtcgcag acaccgttg aaatacccg 
      ctcataaga tggtcctag ccgcttgct ctccctatt 
      tttacgcca tgtttacaa gctttgagg agagcaaac 
      aagacagga ttgttttgc aggaagtgg accatcaag 
      ctttgcaaa ttttggtcg aatatgttt acaccagcg 
      aagtacaag tcactgagg ataacgtac aagtgttgc 
      taccagccg cgaatttgt tacaattga ctgatgtta 
      gggatgctt gttgcgaat ttttacagg tgcagttgc 
      acccaacta actgtttag ggattaggg cgtttgctg 
      atctacacg gctgtttgg agctgctgg ctcatgccg 
      aatcataca ttgagcaac attttattg aggttgttg 
      agtgtgaag agttcctaa cgttgtcgc atcagcaag 
      tttctaagc taatttgca gtgatagac ttaccgtac 
      cttcggaag aacaggtgt tcgaatgcg taattgctt 
      gggttcagc acgatttgg atgcacgcc acaagcatt 
      tagcctctt taatggagc acgtgcgtc tccccctca 
      tgtcgcaag aatacctga tgcaacgcg tcgaagagg 
      agcctctcc tcaaagccg atttgcaat gcaaagact 
      atataatcg aagctctga aatatcacc ttttgaaag 
      gcgacaaca aaacgacgt tccgaaccc ctcgaacca 
      aaccacgac agcccgtcg gcctcccca aagtcctcc 
      tcgtcgtcg gcggtcaag cacccaaag cgatccgaa 
      gtgtggagt gttacgatt tcaaagagg agaaatggt 
      accaagtgg ccgagatgc caacaaggc gctgccgag 
      ccggcttgg cagtcctcc acggcaaag tgtacgccg 
      ttggcgggt tcaacggct cgctccgcg tccgaacgg 
      tcgatgttt acgatgcag ctttagacc agtggaaca 
      cttgcgacc acatggaag cccgccgtt cgactctag 
      gtgttgcgg ttttaggta attgtattt atgcagtcg 
      ggggttttg acggctcga ctggcttaa acaccgccg 
      aaatgtacg accccacaa cggccaaat ggcgctcca 
      tcgccccca tgtccaccc gcaggagca gcgtggggg 
      tcggggtgc tctacggca tcttgtacg ctgtggggg 
      gctacgacg gcgcctcgc gccagtgcc tcagctccg 
      tcgagtgct acacccccg agatcgact gctggactt 
      ccgtgcccg acatggggt gccgccgga gcggggccg 
      gggtggggg tcctggagg gggtgctgt acgccgtgg 
      gggggcacg acggccccc aggtccgca agtccgtgg 
      aggcgtacg atcccgtca agaggttgt ggacggcgg 
      ttagtgata tgacgttct gccgacgca atgctggag 
      tcgttgcgc tcaatgggt tgttgtatg ttgttgggg 
      gcgacgacg ggtgcagta atctctcgt cggttgagg 
      tgtacaacc ccaagactg acacctgga cgctgttgc 
      cgagctgca tggggattg gacgaagct atgcaggcg 
      tggcgatca ttgataagc cgatttgaa agtcgcctc 
      atgctggca acagggtca atagcgcca ctgcgacgt 
      cga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY