Status
Please wait ...
Gene information
General information
TC012672 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: 12839846..12844720
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
    TC012672
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05294

    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: 30.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): less than 30%
    with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    appendages sometimes partially remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    legs shortened - Penetrance (percentage of animals/eggs on slide): less than 30%

    legs shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

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


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012672 RA
      MFHRKLVII SLFLVRLTN ALDWQYHNN TELEKYLKN 
      FTATTRGIK TRLYSIGKS TKNNDLWVV RLTAAKESK 
      LGVPNIKLI GTVHGNEPV GREILLHFM EFLRANYRT 
      DPKITWLLD NTKIHFLPN LNPDGFALA SENMCEGEY 
      GRNNALRGM DLNRNFPDY FRTNRIPEA PETKAVKKW 
      LREVPFILS AALHGGALV ANYPFDTVQ ELTSFDTYP 
      PSETPDNDV FVHLAGVYA RNHLKMHKG DACNKFQKF 
      QGGIVNGAA WYPITGGMQ DYNYAFHGC MEITLEISC 
      CKYPSAEDL PQFWEENRM ALLNYCVEA HRGVTGQIL 
      DRATLKPIA HAALRVSGR NITFRTGKT GEFWRLLLP 
      GNYELEVTA EGYYDQSAP FVVRNFNNS LPELTFLKI 
      YLINSSFST TTQRTTRVT TELVRETLD GASTTDSFT 
      EIIEEKQPI NARQIRLSE ESSASGNGT FVYFLFLLS 
      FLTRLFVN
    CDS sequence
    • >TC012672 RA
      atgtttcat cgcaaattg gtgattatt tccctgttc 
      ttggtgcgt ttaacgaac gcactcgac tggcaatac 
      cacaacaac accgaactc gagaaatat ttgaaaaat 
      ttcacggca acaacacgc gggattaaa acccgcctt 
      tactccatc ggaaaatca acaaaaaac aacgactta 
      tgggtggtg cgtttgacc gccgccaaa gagtcaaaa 
      ctaggtgtt ccgaacatt aaactcata ggaactgtc 
      catgggaat gagccagtt ggccgcgaa attttgctc 
      cacttcatg gagtttttg cgcgccaat taccgcact 
      gacccgaaa atcacctgg ctcttggac aacacaaaa 
      atccacttt ttgcccaac ctgaacccg gacgggttc 
      gcgctagct agcgagaac atgtgcgag ggcgaatac 
      ggccggaat aacgctttg cgcggcatg gacttgaac 
      cggaacttc ccggattat ttccgcacc aatcggatt 
      ccggaggcg ccggagacc aaagctgtg aaaaagtgg 
      ctacgtgag gtgcccttt attctatcg gcggctctc 
      catggcggg gctctggtc gcgaattac ccattcgat 
      acagtgcaa gaattgact tcgttcgat acgtatccg 
      ccctcggag acccccgat aacgatgtt ttcgtgcat 
      ttggccggg gtttatgcc aggaatcac ctgaaaatg 
      cacaagggt gatgcttgt aacaagttt caaaaattc 
      caggggggg attgttaac ggggctgcg tggtatccg 
      attacagga ggaatgcaa gattacaat tatgcattc 
      cacggctgt atggaaatc actctagaa atctcgtgt 
      tgtaaatat ccaagcgcg gaagacctg ccacagttc 
      tgggaagaa aacagaatg gccttgcta aattactgt 
      gtggaggcc cacaggggc gtaacgggc caaatcctc 
      gacagggcc accctcaag cccatcgca cacgcagct 
      ctgcgagtt tcaggccga aatatcaca ttccgcacc 
      ggaaaaacc ggagaattc tggcgactc cttctgccc 
      ggaaactac gaacttgaa gtcacggcg gagggatat 
      tacgaccaa agtgctcct ttcgttgtc aggaatttc 
      aataattcg ttgccggaa ttgaccttt ttgaaaatc 
      tatttgata aattcaagt tttagcacc acgacgcag 
      agaactaca agagtgacg acggaactt gtaagagag 
      actttagat ggcgcttcc acaaccgat tctttcact 
      gaaataatc gaagagaag cagccgata aatgccaga 
      caaattcgc ttgagcgaa gaaagttcg gccagtggg 
      aatggcact tttgtttat ttcctgttt ttactttct 
      tttctgacg agactgttt gtcaactga
    mRNA sequence
    • >TC012672 RA
      cgtgctgaa tttatgaga agttatgtt tacaatcag 
      ttaaaggtg aaacattta ttatcgttt agaacatcc 
      gttgtggtt tccgttccg gtcaaagta aatattaat 
      caaaagaaa ataattcaa aatgataat aaatcgccg 
      cgataaagt gatttgttt ctgttccac acgtctgtc 
      atgtgcgaa acttgctga agaaacact tcattatct 
      ctattttgc tgaaaagca tcgaacgac cacaacgat 
      atcactata ccaaagtgc aaaatcgcg ccaaaagtt 
      ccagtgaca atgtttcat cgcaaattg gtgattatt 
      tccctgttc ttggtgcgt ttaacgaac gcactcgac 
      tggcaatac cacaacaac accgaactc gagaaatat 
      ttgaaaaat ttcacggca acaacacgc gggattaaa 
      acccgcctt tactccatc ggaaaatca acaaaaaac 
      aacgactta tgggtggtg cgtttgacc gccgccaaa 
      gagtcaaaa ctaggtgtt ccgaacatt aaactcata 
      ggaactgtc catgggaat gagccagtt ggccgcgaa 
      attttgctc cacttcatg gagtttttg cgcgccaat 
      taccgcact gacccgaaa atcacctgg ctcttggac 
      aacacaaaa atccacttt ttgcccaac ctgaacccg 
      gacgggttc gcgctagct agcgagaac atgtgcgag 
      ggcgaatac ggccggaat aacgctttg cgcggcatg 
      gacttgaac cggaacttc ccggattat ttccgcacc 
      aatcggatt ccggaggcg ccggagacc aaagctgtg 
      aaaaagtgg ctacgtgag gtgcccttt attctatcg 
      gcggctctc catggcggg gctctggtc gcgaattac 
      ccattcgat acagtgcaa gaattgact tcgttcgat 
      acgtatccg ccctcggag acccccgat aacgatgtt 
      ttcgtgcat ttggccggg gtttatgcc aggaatcac 
      ctgaaaatg cacaagggt gatgcttgt aacaagttt 
      caaaaattc caggggggg attgttaac ggggctgcg 
      tggtatccg attacagga ggaatgcaa gattacaat 
      tatgcattc cacggctgt atggaaatc actctagaa 
      atctcgtgt tgtaaatat ccaagcgcg gaagacctg 
      ccacagttc tgggaagaa aacagaatg gccttgcta 
      aattactgt gtggaggcc cacaggggc gtaacgggc 
      caaatcctc gacagggcc accctcaag cccatcgca 
      cacgcagct ctgcgagtt tcaggccga aatatcaca 
      ttccgcacc ggaaaaacc ggagaattc tggcgactc 
      cttctgccc ggaaactac gaacttgaa gtcacggcg 
      gagggatat tacgaccaa agtgctcct ttcgttgtc 
      aggaatttc aataattcg ttgccggaa ttgaccttt 
      ttgaaaatc tatttgata aattcaagt tttagcacc 
      acgacgcag agaactaca agagtgacg acggaactt 
      gtaagagag actttagat ggcgcttcc acaaccgat 
      tctttcact gaaataatc gaagagaag cagccgata 
      aatgccaga caaattcgc ttgagcgaa gaaagttcg 
      gccagtggg aatggcact tttgtttat ttcctgttt 
      ttactttct tttctgacg agactgttt gtcaactga 
      aggctaaaa ataccaata cggggcctg agatggttt 
      ttgggtcat tatgagcgt caaaaaata attaattag 
      tgccttgtt gttgttgta cataattat ttctttatg 
      ttttacgta atattgtac aaataattg atgaataaa 
      tgctaatgt tccac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY