Status
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Gene information
General information
TC001222 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: 12964219..12966210
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
    TC001222
    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_03156

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (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
    • >TC001222 RA
      MRFNYIVVI LISVCLLIS TKNIQAQAK LCRSSQGLI 
      HRSFWNRWT GYLCYHYDK RVKFKYNYT IIPYDSSYI 
      PVTFINNKT DFFWYDFRN ETSLNYIRP SYKSDTIFE 
      KWKTCAQEA SNCCDYSMT SENINPSDE YPCPAIWDD 
      WSCFSPAKA GSVSKILCP DLTFSSEIR ECELQAQKE 
      CFRNGTWKS KTDYGPCSV PAVLKTRHR FHIIVLSVA 
      AVLSAPAVA IFYSFRAFR LQLRFILHR NLILVIIIK 
      NLLVVITKE MVIMEALTS DGDDTILNG NSVTCRVLA 
      FFENVAKNG VFAAMFLDG FDLHRSIVR PFADAMSSR 
      FVYCAFFVL SCCPALIWA LLRGLHQGE FCWVVDNTG 
      DQWVTDAFR LTILTVNFV LLVDIIRVI VLKLRHDSV 
      SQQTKTTLR VTLFLVPLF GVHIVITVN RNMVPDNTC 
      DSMDVYYFA TYLIEGLQG VLVAFLFCY INKEVHHEI 
      MNAWRKTVI CLQQKLDAK SERTTSATI VESMTCY
    CDS sequence
    • >TC001222 RA
      atgcgtttt aattacatt gtggtaatt ttaataagt 
      gtttgttta ttgatttca acaaaaaac atacaagct 
      caggccaaa ctgtgccga tcctcccaa ggactgatc 
      catcgatct ttttggaac cgatggacc ggctatttg 
      tgttatcac tacgacaaa agagtcaaa ttcaaatac 
      aattacacc ataataccg tacgactct tcgtacatc 
      ccggtcaca tttatcaac aacaaaact gactttttc 
      tggtacgat ttccggaac gaaacgtct ttaaattac 
      attcgccca tcttacaaa agcgacaca attttcgaa 
      aagtggaaa acatgtgcc caggaagcc tccaattgt 
      tgcgattac tccatgacc agtgaaaac attaatcca 
      agcgatgaa tatccttgt cctgcaatt tgggacgac 
      tggagttgc ttcagtcct gcgaaagcc ggctctgtc 
      tcgaaaatc ctttgtccg gacctgacc ttttcgtcc 
      gaaatacgc gaatgcgaa ttacaagcc cagaaggaa 
      tgtttccga aatggcaca tggaagtcc aagactgac 
      tacggcccc tgttccgta cctgcagtt ctcaaaacg 
      cgccaccga tttcatatc attgtcttg tcagtggct 
      gcggtttta tcagctcca gcagttgcg attttttac 
      agttttcgg gcgtttcgc ctccaactc cggttcatt 
      ttacaccgg aatttaatt ctagttatt ataatcaaa 
      aatttgttg gttgttata accaaagaa atggtcata 
      atggaggct ttaacgagc gatggtgac gacacgatt 
      ttaaacgga aacagtgtg acttgcaga gtgcttgcg 
      tttttcgaa aatgtggcc aaaaatggc gttttcgcg 
      gccatgttt ctggacggg tttgacttg caccggtcc 
      atagtccgg ccctttgca gacgcaatg tcctcacgt 
      ttcgtctat tgcgcattt ttcgttttg tcatgttgt 
      cccgccctg atatgggcc ctactgcga ggcttgcac 
      cagggggag ttttgctgg gttgttgat aacacgggc 
      gaccaatgg gtcaccgat gcgttccgt ttgaccatt 
      ttgacagtc aatttcgtc cttttggtg gacattatc 
      agggtcata gtactaaaa ttgagacat gacagtgtg 
      tcccaacaa accaagaca actctgagg gtgacttta 
      tttttggtc ccacttttt ggcgttcat atcgttatc 
      acagtcaat cgaaatatg gtgcctgat aacacttgt 
      gattctatg gatgtttac tactttgcc acttatttg 
      attgaaggg cttcagggc gttttggtg gcatttttg 
      ttctgttac atcaacaaa gaagtccat cacgaaata 
      atgaacgct tggagaaaa acagtcatt tgtttgcaa 
      caaaagctt gacgcaaag agtgagagg acgacttcg 
      gcaacaatc gtggagtct atgacttgt tattaa
    mRNA sequence
    • >TC001222 RA
      agatagcga attatgcgt tttaattac attgtggta 
      attttaata agtgtttgt ttattgatt tcaacaaaa 
      aacatacaa gctcaggcc aaactgtgc cgatcctcc 
      caaggactg atccatcga tctttttgg aaccgatgg 
      accggctat ttgtgttat cactacgac aaaagagtc 
      aaattcaaa tacaattac accataata ccgtacgac 
      tcttcgtac atcccggtc acatttatc aacaacaaa 
      actgacttt ttctggtac gatttccgg aacgaaacg 
      tctttaaat tacattcgc ccatcttac aaaagcgac 
      acaattttc gaaaagtgg aaaacatgt gcccaggaa 
      gcctccaat tgttgcgat tactccatg accagtgaa 
      aacattaat ccaagcgat gaatatcct tgtcctgca 
      atttgggac gactggagt tgcttcagt cctgcgaaa 
      gccggctct gtctcgaaa atcctttgt ccggacctg 
      accttttcg tccgaaata cgcgaatgc gaattacaa 
      gcccagaag gaatgtttc cgaaatggc acatggaag 
      tccaagact gactacggc ccctgttcc gtacctgca 
      gttctcaaa acgcgccac cgatttcat atcattgtc 
      ttgtcagtg gctgcggtt ttatcagct ccagcagtt 
      gcgattttt tacagtttt cgggcgttt cgcctccaa 
      ctccggttc attttacac cggaattta attctagtt 
      attataatc aaaaatttg ttggttgtt ataaccaaa 
      gaaatggtc ataatggag gctttaacg agcgatggt 
      gacgacacg attttaaac ggaaacagt gtgacttgc 
      agagtgctt gcgtttttc gaaaatgtg gccaaaaat 
      ggcgttttc gcggccatg tttctggac gggtttgac 
      ttgcaccgg tccatagtc cggcccttt gcagacgca 
      atgtcctca cgtttcgtc tattgcgca tttttcgtt 
      ttgtcatgt tgtcccgcc ctgatatgg gccctactg 
      cgaggcttg caccagggg gagttttgc tgggttgtt 
      gataacacg ggcgaccaa tgggtcacc gatgcgttc 
      cgtttgacc attttgaca gtcaatttc gtccttttg 
      gtggacatt atcagggtc atagtacta aaattgaga 
      catgacagt gtgtcccaa caaaccaag acaactctg 
      agggtgact ttatttttg gtcccactt tttggcgtt 
      catatcgtt atcacagtc aatcgaaat atggtgcct 
      gataacact tgtgattct atggatgtt tactacttt 
      gccacttat ttgattgaa gggcttcag ggcgttttg 
      gtggcattt ttgttctgt tacatcaac aaagaagtc 
      catcacgaa ataatgaac gcttggaga aaaacagtc 
      atttgtttg caacaaaag cttgacgca aagagtgag 
      aggacgact tcggcaaca atcgtggag tctatgact 
      tgttattaa ttaatattg aataaatga acaatagaa 
      ac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY