Status
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Gene information
General information
TC000574 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_007417.3: 9541959..9576786
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
    TC000574
    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
    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
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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_07864

    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: 50.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (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
    • >TC000574 RA
      MNGSDFLIL PGWELINLT LPEVNWSNT SDPERDAWE 
      QWSSLMQDR AVVVSLLLL FSMTTVFGN MLVILAVVR 
      ERYLHTATN YFITSLAVA DCLVGLVVM PFSALYEVL 
      EHTWFFGTD WCDIWRSLD VLFSTASIL NLCVISLDR 
      YWAITDPIT YPMRMTRIR SALLIAAVW ICSSAISFP 
      AIVWWRAVR TEPIPPYKC PFTEHLGYL IFSSTISFY 
      LPLFVMVFT YYRIYRAAV AQTRSLRLG TKQVLLGSG 
      ELELTLRIH RGGTCKIPN PETRHLYST QEDEPLTAL 
      QNNGLARMA STRLGPHSK NFSLSRKLA KFAKEKKAA 
      KTLGIVMGV FIVCWLPFF VVNLLSGFC LQCIWHEEI 
      VLAVVTWLG WINSSMNPV IYACWSRDF RRAFLRILC 
      VCCPRQIRR RYQPAFRSK PSQYFNSHV VESAPNSVT 
      YSSVGQHEL YPL
    CDS sequence
    • >TC000574 RA
      atgaacggc tcggacttt ttaatttta cctggttgg 
      gagctgata aacttgact ttaccggaa gtgaactgg 
      agcaacact tcagacccg gaacgagac gcctgggaa 
      caatggagt tctttgatg caagatcgt gcagtggta 
      gtttctctt ttactcctt ttctcgatg acaaccgtc 
      tttggtaac atgcttgta atccttgcg gtggtacgt 
      gaacgatat ctccacacc gctacaaac tacttcata 
      acatcgctc gccgtcgcc gattgttta gtgggctta 
      gtggtgatg cctttcagt gcactttac gaagtttta 
      gaacacacg tggtttttc ggaactgac tggtgcgac 
      atctggcgc tcactcgac gtgctgttc agtactgcg 
      tcaatctta aacctttgt gtaatctcc ctggaccgg 
      tactgggcc attaccgac cccataacc taccctatg 
      cggatgact cgcatcaga tctgccctt ttgatagcc 
      gcggtttgg atctgttcg agcgctatt tctttcccg 
      gcgattgtt tggtggagg gcagtacgg accgaaccc 
      atcccgccc tacaaatgc cctttcacc gaacaccta 
      ggctacctc atcttctcc tcaacaatc tccttctac 
      ctgccttta tttgtcatg gtattcacc tactaccga 
      atttaccga gccgcagtc gcccaaaca cgatcctta 
      agactcggt actaagcaa gtactgcta gggtcaggc 
      gaactcgaa ctgacccta aggatacac aggggaggc 
      acgtgcaag atccccaat ccagaaacg cgacatcta 
      tactctact caagaagac gagcctttg acagcgtta 
      caaaataac ggattagcc agaatggcc tcgactaga 
      ttgggacca catagcaag aatttctct ctgagtcgg 
      aaattagcc aaatttgct aaagaaaaa aaagcggca 
      aagacttta gggattgtg atgggggtg tttatcgtg 
      tgttggttg ccgtttttc gttgtgaac ttgctctct 
      ggcttctgt ctgcagtgc atttggcac gaagaaatc 
      gtcctagcg gtggtcacg tggctggga tggatcaac 
      tccagcatg aatcccgtg atctatgct tgctggagc 
      cgagatttc aggagagcc tttttaagg attctgtgt 
      gtttgctgt cctcggcaa ataagacgc cgatatcaa 
      ccagctttc cgaagcaaa ccaagtcag tattttaac 
      tcccatgtg gtcgagagc gccccaaat agcgtgact 
      tactcttca gtgggccaa catgaactt tacccgttg 
      tga
    mRNA sequence
    • >TC000574 RA
      aatataatc tcacagttc gcgtgcgtc gctatctgc 
      caacatgca aatcataaa aaataatac cgagatacc 
      ctacgtatg ccattaaaa ccgtttaat tggaacacg 
      cttgaatta aaacacttt gcattgttc tgacatgtt 
      acacgtttc gggaacttt taaaaaagt tatttttgt 
      caccaactt tgggcttgt gtgagtggg tggtgcaat 
      ttttgggaa ctgctttac agtcattaa gtgtttgca 
      tcccggccg cagcaatga acggctcgg actttttaa 
      ttttacctg gttgggagc tgataaact tgactttac 
      cggaagtga actggagca acacttcag acccggaac 
      gagacgcct gggaacaat ggagttctt tgatgcaag 
      atcgtgcag tggtagttt ctcttttac tccttttct 
      cgatgacaa ccgtctttg gtaacatgc ttgtaatcc 
      ttgcggtgg tacgtgaac gatatctcc acaccgcta 
      caaactact tcataacat cgctcgccg tcgccgatt 
      gtttagtgg gcttagtgg tgatgcctt tcagtgcac 
      tttacgaag ttttagaac acacgtggt ttttcggaa 
      ctgactggt gcgacatct ggcgctcac tcgacgtgc 
      tgttcagta ctgcgtcaa tcttaaacc tttgtgtaa 
      tctccctgg accggtact gggccatta ccgacccca 
      taacctacc ctatgcgga tgactcgca tcagatctg 
      cccttttga tagccgcgg tttggatct gttcgagcg 
      ctatttctt tcccggcga ttgtttggt ggagggcag 
      tacggaccg aacccatcc cgccctaca aatgccctt 
      tcaccgaac acctaggct acctcatct tctcctcaa 
      caatctcct tctacctgc ctttatttg tcatggtat 
      tcacctact accgaattt accgagccg cagtcgccc 
      aaacacgat ccttaagac tcggtacta agcaagtac 
      tgctagggt caggcgaac tcgaactga ccctaagga 
      tacacaggg gaggcacgt gcaagatcc ccaatccag 
      aaacgcgac atctatact ctactcaag aagacgagc 
      ctttgacag cgttacaaa ataacggat tagccagaa 
      tggcctcga ctagattgg gaccacata gcaagaatt 
      tctctctga gtcggaaat tagccaaat ttgctaaag 
      aaaaaaaag cggcaaaga ctttaggga ttgtgatgg 
      gggtgttta tcgtgtgtt ggttgccgt ttttcgttg 
      tgaacttgc tctctggct tctgtctgc agtgcattt 
      ggcacgaag aaatcgtcc tagcggtgg tcacgtggc 
      tgggatgga tcaactcca gcatgaatc ccgtgatct 
      atgcttgct ggagccgag atttcagga gagcctttt 
      taaggattc tgtgtgttt gctgtcctc ggcaaataa 
      gacgccgat atcaaccag ctttccgaa gcaaaccaa 
      gtcagtatt ttaactccc atgtggtcg agagcgccc 
      caaatagcg tgacttact cttcagtgg gccaacatg 
      aactttacc cgttgtgac gccacgtcc ggacgagac 
      atccgacac ctaatttat cgactggaa gtcctggat 
      cgcccacac acagagtga tccattcgt gctcacctt 
      cccctagca ccttaagga tggcataaa atcggagga 
      aaacaatca ctgtggttt cgtcatttt cagtataag 
      tgtgacgtt ctttcgaat tctgttgct gatctcgat 
      ggatctgac tgcttcaga cacttaatg ttaagatag 
      ggggaaatg tgcgctttt agatatttt taaaaagtt 
      gtataacaa aattaggaa taaatgtct gtttttacc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY