Status
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Gene information
General information
TC005391 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: 13821655..13823637
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
    TC005391
    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_10556

    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)

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


    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
    • >TC005391 RA
      MAQSRLERI GTIYTRAQG LIKSGGVRW EDRPLWFDI 
      YEAFPPKEE PNYDRPAPN IPIKQIFYE EDKIRAIFH 
      RNNKKIGAT HLLDTKYKT LTQKFIESY TTIQAQYGE 
      SATEEQIYK EAIDLLKKS HQEVKKEED DVSLSTAFK 
      ESMKEQKAK LKINVVDIF KSYEQSTYS HIFYTGSIE 
      TIPPSITYP SICTSPSFH LSEKPSVSK CDSELIHYG 
      ELQSMYIKS QTFTADHLA PLTIRTSQL VLSLLKRHL 
      GQIVSDIHA GTLKMPDKV VEKFGAASA RNPNQQTDT 
      YTIQRRMIT HFVSLLHVH EMVLTYLKQ RRIEQALDL 
      IKQIAVSHA LKGITVTEF RLVDWFIVN YLIKNKVST 
      DENINHLML YLSTLSNYI VRYFESQSV RHTMLRDMT 
      SVKVNDRSN KARENYRLM KQWTSRIEH SRGQIKDLI 
      DKLLADQAR MQEAREAEI RSIDTQTLK EKDFIMRFF 
      VRKKPTESR STSHSHQEK AST
    CDS sequence
    • >TC005391 RA
      atggcacaa agtcgttta gaacgcatt gggacgatt 
      tataccagg gcccaaggt ttgattaaa tcggggggc 
      gtgaggtgg gaggatcgc cccctttgg tttgacatt 
      tacgaggct tttcccccc aaagaagag ccaaactac 
      gaccggcct gcgcccaat atccccatt aaacaaatt 
      ttctacgaa gaggacaaa atacgagct atttttcac 
      cgcaataat aaaaaaatc ggcgctacg catttactc 
      gacacgaaa tataaaacc ctgacgcag aaattcatc 
      gagagttat acaacaatt caagcacag tatggcgag 
      tcagcgact gaagaacaa atctacaag gaggcaatt 
      gatttgttg aagaagagc caccaagaa gtcaaaaag 
      gaggaagac gatgttagt ttaagtacg gcgtttaag 
      gagtcaatg aaggagcaa aaggccaaa ttaaaaatc 
      aatgttgtt gatatattt aaatcgtac gaacaaagc 
      acttattcc catattttt tataccggg agtatcgaa 
      actattcca ccatcaatc acctatcct tcgatatgt 
      acttccccc tcgtttcat ttgtctgaa aagccttcg 
      gtgtcgaag tgtgacagt gaattgatt cattacggc 
      gaactgcag agtatgtac atcaagtct cagactttc 
      acagctgat catttggcc cccttgacc atcagaacc 
      tcacagtta gtgctgtcg cttctgaag aggcatttg 
      gggcaaatt gttagcgac atccacgca gggacattg 
      aaaatgcct gataaagtg gtagaaaag tttggggct 
      gcaagtgcc cggaacccg aatcagcaa acagacaca 
      tatactatc caaagacga atgatcact catttcgtc 
      tcgttactt cacgttcat gaaatggtt ttaacttat 
      ctcaaacag agacgcatc gaacaagcg ctcgattta 
      atcaaacaa attgcagtt agccacgca cttaaggga 
      atcacagtg actgaattt cggttagtg gactggttt 
      attgtcaat tatttgata aaaaataaa gtaagcact 
      gacgagaac ataaaccac ttgatgctt tacttaagc 
      accctttca aattacatt gtgcgatat ttcgaaagt 
      caaagtgtt cgccatacg atgctccgg gacatgact 
      agtgtgaaa gtaaacgat cggagcaac aaagcaagg 
      gaaaactac cgtttaatg aaacagtgg acctccaga 
      attgaacat tccagaggc caaattaag gatctaatt 
      gacaagctc ctcgcagat caagcccgc atgcaggaa 
      gccagagag gcagaaatt aggagcatt gacactcaa 
      acgctcaaa gaaaaagac ttcattatg cgatttttc 
      gtacgcaag aaaccgaca gaatcgcgc tcaacgtca 
      cactcgcac caggagaag gcctcaacg tga
    mRNA sequence
    • >TC005391 RA
      tcatttttt ttcccacat aaaaaatgg cacaaagtc 
      gtttagaac gcattggga cgatttata ccagggccc 
      aaggtttga ttaaatcgg ggggcgtga ggtgggagg 
      atcgccccc tttggtttg acatttacg aggcttttc 
      cccccaaag aagagccaa actacgacc ggcctgcgc 
      ccaatatcc ccattaaac aaattttct acgaagagg 
      acaaaatac gagctattt ttcaccgca ataataaaa 
      aaatcggcg ctacgcatt tactcgaca cgaaatata 
      aaaccctga cgcagaaat tcatcgaga gttatacaa 
      caattcaag cacagtatg gcgagtcag cgactgaag 
      aacaaatct acaaggagg caattgatt tgttgaaga 
      agagccacc aagaagtca aaaaggagg aagacgatg 
      ttagtttaa gtacggcgt ttaaggagt caatgaagg 
      agcaaaagg ccaaattaa aaatcaatg ttgttgata 
      tatttaaat cgtacgaac aaagcactt attcccata 
      ttttttata ccgggagta tcgaaacta ttccaccat 
      caatcacct atccttcga tatgtactt ccccctcgt 
      ttcatttgt ctgaaaagc cttcggtgt cgaagtgtg 
      acagtgaat tgattcatt acggcgaac tgcagagta 
      tgtacatca agtctcaga ctttcacag ctgatcatt 
      tggccccct tgaccatca gaacctcac agttagtgc 
      tgtcgcttc tgaagaggc atttggggc aaattgtta 
      gcgacatcc acgcaggga cattgaaaa tgcctgata 
      aagtggtag aaaagtttg gggctgcaa gtgcccgga 
      acccgaatc agcaaacag acacatata ctatccaaa 
      gacgaatga tcactcatt tcgtctcgt tacttcacg 
      ttcatgaaa tggttttaa cttatctca aacagagac 
      gcatcgaac aagcgctcg atttaatca aacaaattg 
      cagttagcc acgcactta agggaatca cagtgactg 
      aatttcggt tagtggact ggtttattg tcaattatt 
      tgataaaaa ataaagtaa gcactgacg agaacataa 
      accacttga tgctttact taagcaccc tttcaaatt 
      acattgtgc gatatttcg aaagtcaaa gtgttcgcc 
      atacgatgc tccgggaca tgactagtg tgaaagtaa 
      acgatcgga gcaacaaag caagggaaa actaccgtt 
      taatgaaac agtggacct ccagaattg aacattcca 
      gaggccaaa ttaaggatc taattgaca agctcctcg 
      cagatcaag cccgcatgc aggaagcca gagaggcag 
      aaattagga gcattgaca ctcaaacgc tcaaagaaa 
      aagacttca ttatgcgat ttttcgtac gcaagaaac 
      cgacagaat cgcgctcaa cgtcacact cgcaccagg 
      agaaggcct caacgtgag tatcacccc aatataaca 
      aattcaaaa ta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY