Status
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Gene information
General information
TC000125 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_007418.3: 10829809..10837623
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
    TC000125
    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
    {{ goGene }}
    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 *
    {{ blurReferenceResult }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07995

    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: 0.0% (includes death as pupa, adult)

    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
    • >TC000125 RA
      MVDRNEKVL LELLKLPGN NTCADCGSK NPEWASYNL 
      GIFICTRCS GVHRSMGVH ISKVKHLKL DRWEDSQVE 
      RMKEVGNIK SKMKYEERV PPCYRRPKE NDPQVLIEQ 
      WIRAKYQRE EFCQSQRLV YVSGYMEGF LMKRGKEDS 
      RYHSRKFVL SEAENTLKY FVREKKSPK AELEVSELN 
      VVFAPEKME YPASLQLTF LKYGTTRHI FVYHEDGEV 
      ITNWYMAIR CAKLHRLQV AYPSANEAD LLGFLTEDF 
      AKEGWLWKT GPRTSDGFK KRWFTLDNR KLMYHDEPL 
      DAHPKGEIF LGYAMDGYS VRIGVSAGV RDQGFSFAL 
      TTPDRVFNL SAQTEAERD EWIEVIERV LERPLTRQD 
      EAICTRLVR KRANTNSIT RFSPR
    CDS sequence
    • >TC000125 RA
      atggtcgat cgtaacgag aaagtgttg ttggaactg 
      ttgaaattg ccggggaat aacacgtgt gccgattgc 
      gggagcaaa aatccagaa tgggcgtca tacaacttg 
      ggcatcttc atttgcacc cgatgttca ggtgttcac 
      cgaagcatg ggcgtccac ataagcaaa gtaaaacat 
      ttaaagctc gatcgttgg gaggactct caagtcgaa 
      cgcatgaaa gaagtcgga aacataaaa tcaaaaatg 
      aagtatgaa gaacgtgta cccccttgc tatcgaaga 
      ccgaaagaa aacgaccca caagtgtta atcgaacag 
      tggatccga gctaaatac caaagagaa gaattctgt 
      caatcgcaa agactagtc tacgttagc ggttacatg 
      gagggcttc ctcatgaaa cgtggcaaa gaggacagc 
      cgctaccat tcgcgcaaa ttcgtcctt tccgaagcc 
      gaaaacacc ctcaaatat ttcgtacgc gagaagaaa 
      agtccaaaa gctgagctc gaagtctcc gaattgaac 
      gtagttttc gcgccggaa aaaatggaa tatccagct 
      tcgctccag cttacgttc ctcaaatac ggcacaacc 
      aggcacatt ttcgtgtac catgaagac ggcgaagtg 
      atcaccaac tggtacatg gccatacgt tgtgcaaaa 
      ctacatcga ctccaagtg gcctatccg tcggcaaac 
      gaggccgat ttgttgggc tttctcacc gaggatttt 
      gccaaagag ggctggttg tggaagacg gggcccagg 
      acgagcgac ggcttcaag aagcgatgg tttacgttg 
      gataaccgc aagttgatg tatcacgat gagccgctg 
      gatgcgcat cccaagggc gagattttt cttggctat 
      gccatggac gggtacagt gtgaggatt ggggtgtcg 
      gcaggggtg agggatcag ggattttcg tttgcgttg 
      acgacgcca gatcgggtg tttaatttg tcggctcag 
      acggaggct gagagagac gagtggatc gaagtgatc 
      gagagggtg ttggaaagg ccgctgacg aggcaggac 
      gaagcaatt tgcacccgc ctggtacgg aagagggcc 
      aacacgaac tcaataacc cgcttctct ccgaggtag
    mRNA sequence
    • >TC000125 RA
      aggcaaaaa tggacgaca cgacggcac cattgtgcg 
      tttgaaaag tgttttggt gttggtttt tgtgtttta 
      cggacgaat tatggtcga tcgtaacga gaaagtgtt 
      gttggaact gttgaaatt gccggggaa taacacgtg 
      tgccgattg cgggagcaa aaatccaga atgggcgtc 
      atacaactt gggcatctt catttgcac ccgatgttc 
      aggtgttca ccgaagcat gggcgtcca cataagcaa 
      agtaaaaca tttaaagct cgatcgttg ggaggactc 
      tcaagtcga acgcatgaa agaagtcgg aaacataaa 
      atcaaaaat gaagtatga agaacgtgt acccccttg 
      ctatcgaag accgaaaga aaacgaccc acaagtgtt 
      aatcgaaca gtggatccg agctaaata ccaaagaga 
      agaattctg tcaatcgca aagactagt ctacgttag 
      cggttacat ggagggctt cctcatgaa acgtggcaa 
      agaggacag ccgctacca ttcgcgcaa attcgtcct 
      ttccgaagc cgaaaacac cctcaaata tttcgtacg 
      cgagaagaa aagtccaaa agctgagct cgaagtctc 
      cgaattgaa cgtagtttt cgcgccgga aaaaatgga 
      atatccagc ttcgctcca gcttacgtt cctcaaata 
      cggcacaac caggcacat tttcgtgta ccatgaaga 
      cggcgaagt gatcaccaa ctggtacat ggccatacg 
      ttgtgcaaa actacatcg actccaagt ggcctatcc 
      gtcggcaaa cgaggccga tttgttggg ctttctcac 
      cgaggattt tgccaaaga gggctggtt gtggaagac 
      ggggcccag gacgagcga cggcttcaa gaagcgatg 
      gtttacgtt ggataaccg caagttgat gtatcacga 
      tgagccgct ggatgcgca tcccaaggg cgagatttt 
      tcttggcta tgccatgga cgggtacag tgtgaggat 
      tggggtgtc ggcaggggt gagggatca gggattttc 
      gtttgcgtt gacgacgcc agatcgggt gtttaattt 
      gtcggctca gacggaggc tgagagaga cgagtggat 
      cgaagtgat cgagagggt gttggaaag gccgctgac 
      gaggcagga cgaagcaat ttgcacccg cctggtacg 
      gaagagggc caacacgaa ctcaataac ccgcttctc 
      tccgaggta gtcataaca tatcacaaa catttaact 
      ttcattcat tcatcacca tacctagtc ctgtattta 
      ttatacaat acaaacaca tttatccat tcgtcattc 
      ataaatact catctcgaa gtacaggta actatttta 
      tattatgtg aagtgaagt gaaagtaat ttgtaaata 
      aataaataa aaaaactac ccactctgg atgtaataa 
      attgttttg aacaatgct gtactactg ttgctctct 
      ctctttaca aaaaatatg atctcaata attgttttg 
      ttcaatttt cttcatttc tgcagttat caagcaata 
      atgtctcgt tatctttaa ttttatgat ctgtacaag 
      aaaaggaaa acaattgat acataaata aaagcattg 
      ttttagttc gatcacaat agttacaaa tatatttca 
      ctgccactt attttctac actggctca aatgtatca 
      atttgtgtt tctttcgtt tatatttat tttatattc 
      cgaacggga gcgaggatc aggcgcttc attttctta 
      tatcacggg aaacgaacg gttttattt ttagtggtt 
      acaatccca aatattatg ttattttgc acagtgttc 
      gagttgttt gtttgactc ttgctcctt aatttttta 
      attataagt aaatattta caatgatag gtaccattg 
      tttgtatta tccatttgc caaatataa gatatacac 
      cgcgcgaat tgagctttt attt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY