Status
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Gene information
General information
TC012520 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_007424.3: 10951585..10953446
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
    TC012520
    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 *
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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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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09478

    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)

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: number 2nd lateral oviduct: - Number of animals showing the phenotype: 3
    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
    • >TC012520 RA
      MKSIIFVAI LHCVYLASA ESEPFQLPD SIKDLEIPD 
      MDEFAVIKE KCDKEGGNG TYIKFKTTA NSLSTCMSE 
      FVSLSTLEA EVMESKKTG SMDEVFGKY CKKRSQLAT 
      CVQSFINNL RLCLNAEEQ NALNITLNI VKELGEFAC 
      FKDGDRIAM FVAEGGVEC IKSRTQGIQ NCVNSTFKI 
      SPQSVNPNA IPNILIDKK KCDDLGKLQ RCVVEELEK 
      CKDSTPANI VDALFKFVK RSACSNKNK RSAMIHRIL 
      KRHVATVNH YFNSSELNS IFESTFREK CKNAPENGF 
      KSVQESFKI AKKCIYDQT TEYPIFATP LEKFQEEFK 
      KCTDDFAEK AKVCLPEKE KYFPEFYQK IFINFIEFL 
      YNNQNTILR VSSRSELVN CFQNFKQHK AKSEMSKCF 
      HSFESTSLE KDAVCTRIT KTKSCVTGQ LQKRCIRDV 
      TVNQLVEDF FEVLLSPCD KSG
    CDS sequence
    • >TC012520 RA
      atgaagtca ataatattt gtggcaata cttcactgc 
      gtttattta gcttctgct gaaagtgaa cctttccaa 
      ctacccgac tcgatcaag gacttggaa ataccagac 
      atggacgaa ttcgccgta atcaaggaa aagtgcgat 
      aaagaagga ggaaacggg acttatatc aagttcaag 
      acaactgca aactcgctt tcgacttgc atgtccgaa 
      ttcgtgtcc ctaagtacg ttggaggct gaggtcatg 
      gagtcaaaa aagaccggc tccatggac gaagttttc 
      ggaaaatac tgcaaaaag cggtcgcag ttggccaca 
      tgtgtgcag agcttcatc aacaacctt cgcctctgc 
      ctcaatgcg gaagagcaa aatgcactg aatatcact 
      ctaaatatc gtgaaggaa ttgggcgaa ttcgcctgt 
      tttaaggat ggggacagg attgctatg ttcgtggcc 
      gagggcggg gtcgaatgc atcaaaagc cgcactcag 
      ggaattcaa aattgtgtc aactccacg ttcaaaatc 
      tccccgcaa agcgtcaac cccaacgca attcccaac 
      atattgatc gataagaag aaatgcgac gatttgggt 
      aaacttcag cgatgtgtt gtcgaagaa ttggaaaag 
      tgcaaagac agcacccct gctaatatc gttgatgca 
      ctttttaag ttcgtcaag cgttcggcg tgttctaat 
      aaaaacaaa cggagcgcg atgatccac cgcattttg 
      aaaagacac gtcgcaacg gtcaaccat tattttaat 
      tcctcggaa ctgaacagc atattcgag tccacattt 
      agggaaaag tgcaaaaat gcccccgaa aacggcttt 
      aaatctgtc caagaaagt ttcaaaatt gccaaaaaa 
      tgcatctac gatcagacc accgagtat cccattttt 
      gccacacct ttggagaag ttccaggag gaatttaaa 
      aaatgcacc gacgatttt gccgaaaag gccaaagtt 
      tgtttgccg gaaaaagaa aaatatttc cccgaattt 
      taccagaaa atctttata aactttatc gagtttttg 
      tacaacaac caaaacaca attctaagg gtgtcgtct 
      aggtccgag cttgttaac tgcttccaa aatttcaag 
      caacataaa gcgaagtcc gaaatgagc aaatgtttc 
      cattcgttt gaatccacc agtttggaa aaagacgca 
      gtttgcacg agaataaca aaaaccaaa agttgtgtt 
      actggacaa ttacaaaag aggtgcatt cgcgatgtc 
      accgtcaat caattagtc gaagatttc ttcgaggtg 
      ttgctgagt ccttgtgat aaaagtggt taa
    mRNA sequence
    • >TC012520 RA
      cgtcccata taattcaat tcattcagt gtaacggtt 
      gctagtcat cagtaaact tccaaatat ttttgaaaa 
      tgaagtcaa taatatttg tggcaatac ttcactgcg 
      tttatttag cttctgctg aaagtgaac ctttccaac 
      tacccgact cgatcaagg acttggaaa taccagaca 
      tggacgaat tcgccgtaa tcaaggaaa agtgcgata 
      aagaaggag gaaacggga cttatatca agttcaaga 
      caactgcaa actcgcttt cgacttgca tgtccgaat 
      tcgtgtccc taagtacgt tggaggctg aggtcatgg 
      agtcaaaaa agaccggct ccatggacg aagttttcg 
      gaaaatact gcaaaaagc ggtcgcagt tggccacat 
      gtgtgcaga gcttcatca acaaccttc gcctctgcc 
      tcaatgcgg aagagcaaa atgcactga atatcactc 
      taaatatcg tgaaggaat tgggcgaat tcgcctgtt 
      ttaaggatg gggacagga ttgctatgt tcgtggccg 
      agggcgggg tcgaatgca tcaaaagcc gcactcagg 
      gaattcaaa attgtgtca actccacgt tcaaaatct 
      ccccgcaaa gcgtcaacc ccaacgcaa ttcccaaca 
      tattgatcg ataagaaga aatgcgacg atttgggta 
      aacttcagc gatgtgttg tcgaagaat tggaaaagt 
      gcaaagaca gcacccctg ctaatatcg ttgatgcac 
      tttttaagt tcgtcaagc gttcggcgt gttctaata 
      aaaacaaac ggagcgcga tgatccacc gcattttga 
      aaagacacg tcgcaacgg tcaaccatt attttaatt 
      cctcggaac tgaacagca tattcgagt ccacattta 
      gggaaaagt gcaaaaatg cccccgaaa acggcttta 
      aatctgtcc aagaaagtt tcaaaattg ccaaaaaat 
      gcatctacg atcagacca ccgagtatc ccatttttg 
      ccacacctt tggagaagt tccaggagg aatttaaaa 
      aatgcaccg acgattttg ccgaaaagg ccaaagttt 
      gtttgccgg aaaaagaaa aatatttcc ccgaatttt 
      accagaaaa tctttataa actttatcg agtttttgt 
      acaacaacc aaaacacaa ttctaaggg tgtcgtcta 
      ggtccgagc ttgttaact gcttccaaa atttcaagc 
      aacataaag cgaagtccg aaatgagca aatgtttcc 
      attcgtttg aatccacca gtttggaaa aagacgcag 
      tttgcacga gaataacaa aaaccaaaa gttgtgtta 
      ctggacaat tacaaaaga ggtgcattc gcgatgtca 
      ccgtcaatc aattagtcg aagatttct tcgaggtgt 
      tgctgagtc cttgtgata aaagtggtt aaaacgaga 
      ttgtttcca ccgccggat aatggcact tccatacat 
      tatattaaa tttattctt ggataaata aaatagacg 
      aacttta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY