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Gene information
General information
TC014270 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_007420.3: 8220468..8227143
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
    TC014270
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02792

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 3 (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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014270 RA
      MKDRLFVWT ILFLLFWHE GFSIRWLSL QHSTLHWNL 
      SSVSNNPGR GIRSGARSP CGVARRRYG LAKLQAKLC 
      RSTMEAMPH VQKAAVLAA DTCQTVFKD RRWNCSSIT 
      TAPYLTPDL TRATREQAY VYAISSAAL TYTMARACA 
      SGTLYHCTC AGKPDEPPN SNFQWGGCG DNIHWGVYF 
      AKRFIDNVE KNNVDKSRK RRKGYEYDE DRKSKLVRE 
      EIAAVNLHN NRVGRRIIR ESIQTQCKC HGVSGSCNV 
      KTCWKGLPP MFEIGRKLM KQYTNAKEV SRYYVEGNL 
      GKTRISDHL LYLSKSPDY CTKDVKLGS FGTVGRKCN 
      VTTNETNSC RQLCCGRGY RTLVEEKLE RCHCKYYNC 
      CYVKCKICR TKTQIYECG
    CDS sequence
    • >TC014270 RA
      atgaaggac agactcttc gtgtggaca attttattt 
      ttattattt tggcacgag ggcttttcg attcgttgg 
      ttgtctctt caacattcc actcttcac tggaatttg 
      agttcagtt agcaataat ccggggcgc gggatccgc 
      tccggtgct cgttctcct tgtggtgtg gctcgtagg 
      agatacggt ttggccaaa ttacaggcg aaattatgc 
      cgcagcacc atggaagca atgccacat gtgcaaaag 
      gcggccgtt ctggcggct gacacgtgc cagactgtc 
      ttcaaagac cggagatgg aactgctcc tccatcacc 
      acagccccg tacttaaca cccgactta accagagcc 
      acaagggag caagcttac gtgtatgcc ataagctcg 
      gcagcatta acatacacg atggcacgt gcctgtgct 
      agcggcacc ctttaccac tgcacgtgt gccggtaaa 
      cctgacgaa cccccgaac agcaatttc cagtggggc 
      ggctgcggc gacaacata cactggggg gtgtatttt 
      gcgaaaaga tttatcgat aatgtggag aaaaacaac 
      gtcgataaa agcaggaag cggaggaag gggtacgag 
      tacgatgaa gacaggaaa agtaagctt gtgagggag 
      gaaatcgcg gctgtcaac ttgcacaac aaccgtgtc 
      ggacgacga attatcagg gaaagtatt caaacgcag 
      tgcaaatgt catggcgtt tccgggtct tgtaatgtt 
      aaaacgtgt tggaagggc ctacccccg atgtttgaa 
      atcgggcga aagttgatg aagcaatat acgaatgcg 
      aaagaagtg tcgaggtat tatgtcgag ggcaatttg 
      ggaaaaacg cgaatttct gaccatctc ttgtacctt 
      tccaaatcg ccggactat tgcacgaag gatgtgaag 
      ctgggaagc tttggcacc gtaggaaga aaatgcaat 
      gtgaccaca aatgaaacc aacagttgt cgtcaattg 
      tgctgcgga agaggttac agaaccctg gtggaagaa 
      aaactggag agatgtcac tgcaaatac tacaactgt 
      tgttacgtg aaatgtaaa atttgtcga accaaaaca 
      caaatttac gaatgcggt tga
    mRNA sequence
    • >TC014270 RA
      caaatttta taacaagtg gcatttctt cgactaact 
      aaactcgta aaagttaca ataaattga atatttttt 
      ttttattga aataatgta aaaatcaaa atgaaggac 
      agactcttc gtgtggaca attttattt ttattattt 
      tggcacgag ggcttttcg attcgttgg ttgtctctt 
      caacattcc actcttcac tggaatttg agttcagtt 
      agcaataat ccggggcgc gggatccgc tccggtgct 
      cgttctcct tgtggtgtg gctcgtagg agatacggt 
      ttggccaaa ttacaggcg aaattatgc cgcagcacc 
      atggaagca atgccacat gtgcaaaag gcggccgtt 
      ctggcggct gacacgtgc cagactgtc ttcaaagac 
      cggagatgg aactgctcc tccatcacc acagccccg 
      tacttaaca cccgactta accagagcc acaagggag 
      caagcttac gtgtatgcc ataagctcg gcagcatta 
      acatacacg atggcacgt gcctgtgct agcggcacc 
      ctttaccac tgcacgtgt gccggtaaa cctgacgaa 
      cccccgaac agcaatttc cagtggggc ggctgcggc 
      gacaacata cactggggg gtgtatttt gcgaaaaga 
      tttatcgat aatgtggag aaaaacaac gtcgataaa 
      agcaggaag cggaggaag gggtacgag tacgatgaa 
      gacaggaaa agtaagctt gtgagggag gaaatcgcg 
      gctgtcaac ttgcacaac aaccgtgtc ggacgacga 
      attatcagg gaaagtatt caaacgcag tgcaaatgt 
      catggcgtt tccgggtct tgtaatgtt aaaacgtgt 
      tggaagggc ctacccccg atgtttgaa atcgggcga 
      aagttgatg aagcaatat acgaatgcg aaagaagtg 
      tcgaggtat tatgtcgag ggcaatttg ggaaaaacg 
      cgaatttct gaccatctc ttgtacctt tccaaatcg 
      ccggactat tgcacgaag gatgtgaag ctgggaagc 
      tttggcacc gtaggaaga aaatgcaat gtgaccaca 
      aatgaaacc aacagttgt cgtcaattg tgctgcgga 
      agaggttac agaaccctg gtggaagaa aaactggag 
      agatgtcac tgcaaatac tacaactgt tgttacgtg 
      aaatgtaaa atttgtcga accaaaaca caaatttac 
      gaatgcggt tgaacccct caacatacc tacagtcgt 
      aattttcaa ataaactga tcatcgtta t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY