Status
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Gene information
General information
TC001320 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: 14457974..14462066
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
    TC001320
    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
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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_00238

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 20.0% (includes death as larva, prepupa, pupa, adult)

    remarks: later than schedule, hours 100
    Adult morphology
    remarks: later than schedule, hours 100
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC001320 RA
      MTEIKHHYE QECMTTLQA KSIAGELHQ KVATMATFT 
      ISSIRTVLT HSECIQREY KSLNSEKKH VGPLAQSLA 
      GNIIDFIKT YSEVTPKLL KQYDSVRKT NEDFLTLVS 
      QLFAQWESV CHTVLVKEI KRLVDKLEN PCSELDLRA 
      TITGITSLC LRNDHLIEI FTKNDVIPI LLILCEKCE 
      GSSMRSLLL RALSTMCST AFAVRQFER FSGIQIVSD 
      TLGEEPFRP EPERSEAVA LLAQVTAPW IEDNHCIKG 
      LPDYSRKLV KSLTRFLST TKCCQNLLL CTAALANLS 
      TMDNKSIKH ILHLNTIEL LLEAVNRRG PCASVYLLE 
      QVATLLANM TSLQPARLQ LVKLKTIPA LLCCLRSGS 
      VGEEVEKRL QQKAIIALS RLCGEKEAA AQVVQLGGV 
      EKLVKMCRE KNERFSNDA VLVATLATL RKIADACGR 
      EVISVEDVQ ELVEPKLLD SFLAYSSQN ESYV
    CDS sequence
    • >TC001320 RA
      atgacggaa ataaaacat cactacgaa caggagtgc 
      atgaccacc ctccaggcc aagtccata gccggggaa 
      ctgcaccag aaggtggcc accatggcc actttcacc 
      atttcgagc attaggacg gttttaacg cactcggag 
      tgcatccaa cgcgaatat aaaagcctc aacagtgag 
      aagaaacac gtggggcct ttagcccaa agccttgcc 
      ggtaacatc atcgatttc atcaaaacc tactcagag 
      gtgaccccc aaactgtta aaacagtac gactcagtc 
      aggaaaacg aacgaagat ttcttaaca ctcgtgtcc 
      caactgttc gcccaatgg gagagcgtg tgtcacact 
      gtcttggtc aaagaaatc aaacgactg gtcgataaa 
      ttggaaaat ccatgttcg gagctcgat ttacgtgcc 
      acaatcact gggatcacc tccttgtgc ttgcgaaac 
      gatcatttg attgagatt ttcaccaaa aatgacgta 
      atcccaata ctgttgatt ctgtgcgag aaatgcgaa 
      ggttcctcc atgaggagt ctcctcctg cgtgcactt 
      tcaacaatg tgttccacc gctttcgcg gtccggcaa 
      tttgagcgt ttttccggg attcaaatc gtcagtgac 
      actcttgga gaggagcct tttcggcct gaacctgaa 
      cgttccgaa gccgtggcg cttctggcc caagtgaca 
      gcgccatgg attgaagac aaccactgc attaaaggc 
      ctgcctgac tattcgaga aaactggtc aagtctttg 
      actagattc ctctcgacc acgaaatgt tgccaaaac 
      ctgctcttg tgcactgca gctcttgcc aacttgtcc 
      acgatggac aacaaaagc atcaaacac atcttacac 
      ttgaatact attgagcta ctcttggag gcggtgaat 
      agacgaggg ccttgtgct tccgtctat ctcctagag 
      caagtggcg actttgtta gccaacatg acttcactc 
      caaccggcg agattacaa ctggtgaag ttgaagaca 
      attccagcc ttgttgtgt tgtttgaga agtggaagt 
      gttggcgag gaagttgag aaaagattg caacagaaa 
      gctatcata gctttgtcg aggctttgt ggcgagaaa 
      gaggcagct gctcaagtt gtgcaactt ggaggtgtt 
      gaaaaacta gtcaaaatg tgtagggag aagaatgag 
      aggtttagt aacgatgcg gttcttgtc gcaactttg 
      gctactttg aggaaaata gcggatgct tgcgggagg 
      gaagtgatc agtgttgag gatgtccaa gagttggtt 
      gagccgaaa ttgctggac tcgtttctg gcgtattcg 
      agtcagaac gagagttac gtgtaa
    mRNA sequence
    • >TC001320 RA
      gctgttatt gttggacta acttatcaa acaaatata 
      atactcgat taccttgaa aaccggtgg tgttttaac 
      gtttttttt tttttgctt tttaccctt gaaaatcag 
      ggtgttttt acatttttt ttggtgtgt cttttattt 
      ttgactcga agaaggaga gaaccactt gacaatgac 
      gctgtacaa acttggatg acggaaata aaacatcac 
      tacgaacag gagtgcatg accaccctc caggccaag 
      tccatagcc ggggaactg caccagaag gtggccacc 
      atggccact ttcaccatt tcgagcatt aggacggtt 
      ttaacgcac tcggagtgc atccaacgc gaatataaa 
      agcctcaac agtgagaag aaacacgtg gggccttta 
      gcccaaagc cttgccggt aacatcatc gatttcatc 
      aaaacctac tcagaggtg acccccaaa ctgttaaaa 
      cagtacgac tcagtcagg aaaacgaac gaagatttc 
      ttaacactc gtgtcccaa ctgttcgcc caatgggag 
      agcgtgtgt cacactgtc ttggtcaaa gaaatcaaa 
      cgactggtc gataaattg gaaaatcca tgttcggag 
      ctcgattta cgtgccaca atcactggg atcacctcc 
      ttgtgcttg cgaaacgat catttgatt gagattttc 
      accaaaaat gacgtaatc ccaatactg ttgattctg 
      tgcgagaaa tgcgaaggt tcctccatg aggagtctc 
      ctcctgcgt gcactttca acaatgtgt tccaccgct 
      ttcgcggtc cggcaattt gagcgtttt tccgggatt 
      caaatcgtc agtgacact cttggagag gagcctttt 
      cggcctgaa cctgaacgt tccgaagcc gtggcgctt 
      ctggcccaa gtgacagcg ccatggatt gaagacaac 
      cactgcatt aaaggcctg cctgactat tcgagaaaa 
      ctggtcaag tctttgact agattcctc tcgaccacg 
      aaatgttgc caaaacctg ctcttgtgc actgcagct 
      cttgccaac ttgtccacg atggacaac aaaagcatc 
      aaacacatc ttacacttg aatactatt gagctactc 
      ttggaggcg gtgaataga cgagggcct tgtgcttcc 
      gtctatctc ctagagcaa gtggcgact ttgttagcc 
      aacatgact tcactccaa ccggcgaga ttacaactg 
      gtgaagttg aagacaatt ccagccttg ttgtgttgt 
      ttgagaagt ggaagtgtt ggcgaggaa gttgagaaa 
      agattgcaa cagaaagct atcatagct ttgtcgagg 
      ctttgtggc gagaaagag gcagctgct caagttgtg 
      caacttgga ggtgttgaa aaactagtc aaaatgtgt 
      agggagaag aatgagagg tttagtaac gatgcggtt 
      cttgtcgca actttggct actttgagg aaaatagcg 
      gatgcttgc gggagggaa gtgatcagt gttgaggat 
      gtccaagag ttggttgag ccgaaattg ctggactcg 
      tttctggcg tattcgagt cagaacgag agttacgtg 
      taaaaactg ccattatat acctaccta gagtgttca 
      ctattcgga gtatttatt atttgttac tttatttat 
      tattttatg tacaaacaa aacggaatt aaatgtgta 
      ttttgatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY