Status
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Gene information
General information
TC008256 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_007419.2: 7381654..7383868
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
    TC008256
    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_01328

    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: 20.0% (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


    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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as pupa) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection


    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection


    Pupal morphology
    wings shape irregular - Number of animals showing the phenotype: 2

    longitudinal dorsal thoracic muscles position irregular - Number of animals showing the phenotype: 2

    oblique dorsal thoracic muscles shortened - Number of animals showing the phenotype: 2
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008256 RA
      MALNLFTSI KYAKSLKPL ARCYSDQFP KITTHYTVV 
      PRENDPRWK EVNMERFGD ETDILIIGG GPAGMSAAI 
      RAKQLAEKD GKELRVCVV EKASQVGGH ILSGAVIQP 
      TALDELIPD WADKGAPLK TPVKEDKFG ILTATGRIP 
      VPVLPGTPM YNHGNYIVR LGHVVQWLG EQAEAMGVE 
      IYPGYAASE ILYHPDGSV KGVATNDVG IAKDGSPKD 
      NFERGMELH AKCTIFAEG CHGHLSKQI INKFNLRAN 
      SEPQTYGIG LKEIWEIDP SKHSPGRVE HSIGWPLDK 
      FTYGGSFLY HLNEDTPLV AVGFVVALD YSNPYLSPF 
      REFQRFKHH PSVKHYFEG GTRIAYGAR ALNEGGFQS 
      IPKLTFPGG CLVGCSAGF LNVPKIKGT HYAMKSGML 
      AAESAYEAI NSEKQETEG FEPKSYPDK VKNSFIWKD 
      LKRVRNVRP SFHNPLGMY GGVMYSGFS IMIGGMEPW 
      TFKHGDPDY KRLKPAKDC TPIDYPKPD GKISFDLLS 
      SVALTGTNH EGDQPPHLT LKDDTVPVK QNLGIYDGP 
      EGRFCPAGV YEFVPLESG DGQRLQINA QNCIHCKTC 
      DIKDPSQNI NWVVPEGGG GPAYNGM
    CDS sequence
    • >TC008256 RA
      atggcatta aatttgttt acaagtata aaatacgct 
      aaatctttg aaacctttg gcacgatgt tattcggac 
      cagtttccc aaaatcacg acccactat accgttgtg 
      ccgcgagaa aacgaccca cgatggaaa gaggtgaat 
      atggaacgg ttcggggac gagacggat attttaata 
      atcggggga ggtcctgcg gggatgtct gccgcgata 
      agagccaaa caattggct gaaaaagac gggaaagag 
      ctcagggtt tgtgttgtg gagaaagca tctcaagta 
      ggaggtcac attttatca ggagctgtt atacaacca 
      acagcactc gatgaatta atccctgat tgggcggat 
      aagggggca ccgttaaaa accccagta aaggaagac 
      aaattcggg attttaaca gccacgggt cgaatccct 
      gttccggta ctgccaggt acccccatg tacaaccac 
      gggaactac atcgtgcgg ctggggcac gtggtgcaa 
      tggcttggg gagcaagcc gaggccatg ggtgttgaa 
      atctaccca gggtacgca gcttcggaa atcctctac 
      catcccgat ggtagcgtt aaaggggtg gcgaccaac 
      gatgtgggt atcgccaaa gatgggagc cctaaagac 
      aatttcgaa cgaggcatg gaattacat gccaaatgt 
      accattttt gcggagggc tgccatgga catttatcc 
      aaacaaatc ataaacaaa ttcaacttg agggcaaac 
      tccgagcca caaacctac ggtattggt ttgaaggag 
      atttgggag attgatcct tcgaaacac agtcctggc 
      cgcgttgag cactcgatt ggttggcct ttggataaa 
      ttcacctac ggtggaagc ttcctctac cacctcaat 
      gaagatact cctttggtg gcggttgga tttgttgtc 
      gccttggac tattccaac ccttatttg agccctttt 
      agagagttc caaaggttc aagcaccac cctagcgtc 
      aaacactac ttcgaggga ggtacacgt attgcctat 
      ggggcgcgt gctttgaac gaaggtggc ttccagagt 
      attcccaaa ctgacgttc cctggagga tgtctcgtt 
      gggtgttcg gccggcttc ctcaatgta ccaaaaatc 
      aaaggcacg cattatgcc atgaaaagt gggatgttg 
      gctgcggaa agcgcctac gaagccatt aatagcgaa 
      aaacaagaa actgaaggt tttgaaccg aagagctat 
      ccagacaaa gttaagaac agtttcatt tggaaagac 
      ttgaaacgg gtgaggaac gtacgaccc agcttccat 
      aatcctttg gggatgtat ggaggagtg atgtacagt 
      ggattttcc ataatgatt ggggggatg gaaccgtgg 
      actttcaaa catggcgat cccgattac aagagactc 
      aaaccggcc aaagactgt acacctatc gattatccg 
      aagcctgac ggtaaaatc agcttcgat ctcctctct 
      tccgttgcg ctgactggg accaatcat gaaggtgac 
      caacccccg catctaacc ctgaaggac gataccgtt 
      cctgttaag caaaatttg ggcatttat gacgggcct 
      gaaggccgg ttttgtcca gcaggagtg tacgaattc 
      gtcccgctt gaaagtggg gacggtcaa aggctgcaa 
      atcaacgcc cagaactgt atacattgc aaaacttgc 
      gatattaaa gacccgagt cagaacatc aactgggtg 
      gttcccgaa ggaggtggc ggcccggct tacaacgga 
      atgtaa
    mRNA sequence
    • >TC008256 RA
      tgtttgtca atcacaaat gttacgtca aaggtgtag 
      tagggcaac tagctggtc gacatggca ttaaatttg 
      tttacaagt ataaaatac gctaaatct ttgaaacct 
      ttggcacga tgttattcg gaccagttt cccaaaatc 
      acgacccac tataccgtt gtgccgcga gaaaacgac 
      ccacgatgg aaagaggtg aatatggaa cggttcggg 
      gacgagacg gatatttta ataatcggg ggaggtcct 
      gcggggatg tctgccgcg ataagagcc aaacaattg 
      gctgaaaaa gacgggaaa gagctcagg gtttgtgtt 
      gtggagaaa gcatctcaa gtaggaggt cacatttta 
      tcaggagct gttatacaa ccaacagca ctcgatgaa 
      ttaatccct gattgggcg gataagggg gcaccgtta 
      aaaacccca gtaaaggaa gacaaattc gggatttta 
      acagccacg ggtcgaatc cctgttccg gtactgcca 
      ggtaccccc atgtacaac cacgggaac tacatcgtg 
      cggctgggg cacgtggtg caatggctt ggggagcaa 
      gccgaggcc atgggtgtt gaaatctac ccagggtac 
      gcagcttcg gaaatcctc taccatccc gatggtagc 
      gttaaaggg gtggcgacc aacgatgtg ggtatcgcc 
      aaagatggg agccctaaa gacaatttc gaacgaggc 
      atggaatta catgccaaa tgtaccatt tttgcggag 
      ggctgccat ggacattta tccaaacaa atcataaac 
      aaattcaac ttgagggca aactccgag ccacaaacc 
      tacggtatt ggtttgaag gagatttgg gagattgat 
      ccttcgaaa cacagtcct ggccgcgtt gagcactcg 
      attggttgg cctttggat aaattcacc tacggtgga 
      agcttcctc taccacctc aatgaagat actcctttg 
      gtggcggtt ggatttgtt gtcgccttg gactattcc 
      aacccttat ttgagccct tttagagag ttccaaagg 
      ttcaagcac caccctagc gtcaaacac tacttcgag 
      ggaggtaca cgtattgcc tatggggcg cgtgctttg 
      aacgaaggt ggcttccag agtattccc aaactgacg 
      ttccctgga ggatgtctc gttgggtgt tcggccggc 
      ttcctcaat gtaccaaaa atcaaaggc acgcattat 
      gccatgaaa agtgggatg ttggctgcg gaaagcgcc 
      tacgaagcc attaatagc gaaaaacaa gaaactgaa 
      ggttttgaa ccgaagagc tatccagac aaagttaag 
      aacagtttc atttggaaa gacttgaaa cgggtgagg 
      aacgtacga cccagcttc cataatcct ttggggatg 
      tatggagga gtgatgtac agtggattt tccataatg 
      attgggggg atggaaccg tggactttc aaacatggc 
      gatcccgat tacaagaga ctcaaaccg gccaaagac 
      tgtacacct atcgattat ccgaagcct gacggtaaa 
      atcagcttc gatctcctc tcttccgtt gcgctgact 
      gggaccaat catgaaggt gaccaaccc ccgcatcta 
      accctgaag gacgatacc gttcctgtt aagcaaaat 
      ttgggcatt tatgacggg cctgaaggc cggttttgt 
      ccagcagga gtgtacgaa ttcgtcccg cttgaaagt 
      ggggacggt caaaggctg caaatcaac gcccagaac 
      tgtatacat tgcaaaact tgcgatatt aaagacccg 
      agtcagaac atcaactgg gtggttccc gaaggaggt 
      ggcggcccg gcttacaac ggaatgtaa ttaagtgcc 
      tttaagcaa attgctt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY