Status
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Gene information
General information
TC001036 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: 10020090..10024549
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
    TC001036
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09646

    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: 80.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 5 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection


    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
    • >TC001036 RA
      MSFENIDDR IFRQLKLSV SKDLFGAKT YQEPRTSAN 
      CDRFIPCRA GNNWETSFA TLPDTNKNS QTGKKTRET 
      GENTRDSSV YNILLRNEL FGENTEDVK SQCDERQVL 
      TPVKSRNLF RYGTPSKME KTPTNKFQS SPYSMSPLS 
      VSSQRLLRS PHKATRKIS RIPFKVLDA PELQDDFYL 
      NLVDWSVQN VLSVGLGSC VYLWSACTS QVTRLCDLS 
      ADGNVVTSV AWSERGHLV AVGTHHGYV TVWDVSVNK 
      QVNKLQGHS ARVGALAWN GDVLSSGSR DRLILQRDT 
      RTPPTVTER RLVGHRQEV CGLKWSPDN QYLASGGND 
      NRLYVWNMQ SLSPVQTYT DHLAAVKAI AWSPHHHGL 
      LASGGGTAD RCIRFWNTL TGQPMQSVD TGSQVCNLA 
      WSKHSSELV STHGYSQNQ ILVWKYPSL TQVAKLTGH 
      SYRVLYLAL SPDGEAIVT GAGDETLRF WNVFSKARS 
      QKETRSVLS LYTGIR
    CDS sequence
    • >TC001036 RA
      atgtcgttt gaaaatatc gacgatcgg attttccga 
      caactcaag ctctccgtt tcgaaggac ttatttggg 
      gcgaagacc tatcaggaa cccaggact tcggccaac 
      tgtgacagg ttcatccct tgtcgggcc gggaataac 
      tgggagacg agcttcgcc acccttcct gacactaac 
      aagaactca caaacgggg aaaaaaacg agggagacg 
      ggggaaaac accagagac agttccgtt tataatatc 
      ctcctcagg aatgaactg tttggggag aacacggag 
      gacgtcaag tcgcagtgt gacgagaga caggtgctc 
      acccccgtc aaaagcagg aacttgttc agatacggg 
      accccctca aagatggag aagacgccg acgaacaag 
      ttccagtca agcccgtac tccatgtcg ccccttagt 
      gtcagcagc cagcgcttg ctgcgttcg ccccacaaa 
      gccacgcga aaaatctcc cgaatccct ttcaaagtc 
      ctggacgcg cccgaactt caggacgat ttctattta 
      aatctagtc gattggtcc gtacagaac gtccttagt 
      gtcggtctc ggtagttgt gtgtattta tggtcggca 
      tgtactagt caagtgacg agactttgc gatttatcg 
      gccgatggt aacgtggtg acgtcggtg gcgtggagt 
      gaaagagga catctagtg gcagtggga acacatcac 
      ggttacgtt accgtgtgg gacgtatcc gtcaataaa 
      caagtgaat aagttgcaa ggacactcg gcaagggtg 
      ggcgccttg gcctggaat ggggacgtt ctgagttcg 
      gggagcagg gataggctg attttgcag agggacacg 
      aggacgccc cccactgtg acggagcgc cgactcgtg 
      ggccaccgc caggaagtg tgtggcttg aagtggtcc 
      ccggacaac caatatttg gcttccggt ggcaacgac 
      aaccgactt tacgtctgg aacatgcag tctttatcc 
      ccagtccag acatacacc gaccatcta gcggcagtg 
      aaagcaatc gcgtggtcc ccacaccac cacggcctc 
      ctagcctca ggtggcgga acggccgat aggtgcatc 
      aggttttgg aacaccttg acaggccag ccaatgcaa 
      agcgtggac acggggtcg caagtgtgc aatttagcc 
      tggtccaag cacagctcg gagttggtt tcaacacac 
      ggatattcg caaaatcag attttggtg tggaaatat 
      ccaagtttg actcaagtg gcgaaactg accggacat 
      tcgtaccga gtgctgtat ttggctctg tcgccggat 
      ggcgaggcc attgttaca ggggccggc gacgaaacg 
      ttgcgtttt tggaacgtt ttcagcaaa gcgaggtcg 
      cagaaggaa acgcgctcc gttttgagc ttatacacc 
      gggatacgt tag
    mRNA sequence
    • >TC001036 RA
      tggctgttg ccatattgt gttgtcgtt caaatctcg 
      atttaaagg tccagaaac gagaatagt ggggagaat 
      gttaattat ttcgcttac tgacagttt ttcataaga 
      cataaaact cctcacttg agtgtctgg aagtctcga 
      aagcgcgtc atgtaaata gagaacatg tcgtttgaa 
      aatatcgac gatcggatt ttccgacaa ctcaagctc 
      tccgtttcg aaggactta tttggggcg aagacctat 
      caggaaccc aggacttcg gccaactgt gacaggttc 
      atcccttgt cgggccggg aataactgg gagacgagc 
      ttcgccacc cttcctgac actaacaag aactcacaa 
      acggggaaa aaaacgagg gagacgggg gaaaacacc 
      agagacagt tccgtttat aatatcctc ctcaggaat 
      gaactgttt ggggagaac acggaggac gtcaagtcg 
      cagtgtgac gagagacag gtgctcacc cccgtcaaa 
      agcaggaac ttgttcaga tacgggacc ccctcaaag 
      atggagaag acgccgacg aacaagttc cagtcaagc 
      ccgtactcc atgtcgccc cttagtgtc agcagccag 
      cgcttgctg cgttcgccc cacaaagcc acgcgaaaa 
      atctcccga atccctttc aaagtcctg gacgcgccc 
      gaacttcag gacgatttc tatttaaat ctagtcgat 
      tggtccgta cagaacgtc cttagtgtc ggtctcggt 
      agttgtgtg tatttatgg tcggcatgt actagtcaa 
      gtgacgaga ctttgcgat ttatcggcc gatggtaac 
      gtggtgacg tcggtggcg tggagtgaa agaggacat 
      ctagtggca gtgggaaca catcacggt tacgttacc 
      gtgtgggac gtatccgtc aataaacaa gtgaataag 
      ttgcaagga cactcggca agggtgggc gccttggcc 
      tggaatggg gacgttctg agttcgggg agcagggat 
      aggctgatt ttgcagagg gacacgagg acgcccccc 
      actgtgacg gagcgccga ctcgtgggc caccgccag 
      gaagtgtgt ggcttgaag tggtccccg gacaaccaa 
      tatttggct tccggtggc aacgacaac cgactttac 
      gtctggaac atgcagtct ttatcccca gtccagaca 
      tacaccgac catctagcg gcagtgaaa gcaatcgcg 
      tggtcccca caccaccac ggcctccta gcctcaggt 
      ggcggaacg gccgatagg tgcatcagg ttttggaac 
      accttgaca ggccagcca atgcaaagc gtggacacg 
      gggtcgcaa gtgtgcaat ttagcctgg tccaagcac 
      agctcggag ttggtttca acacacgga tattcgcaa 
      aatcagatt ttggtgtgg aaatatcca agtttgact 
      caagtggcg aaactgacc ggacattcg taccgagtg 
      ctgtatttg gctctgtcg ccggatggc gaggccatt 
      gttacaggg gccggcgac gaaacgttg cgtttttgg 
      aacgttttc agcaaagcg aggtcgcag aaggaaacg 
      cgctccgtt ttgagctta tacaccggg atacgttag 
      gttttttaa ttatatatc aagtttata taattttgc 
      tattacttt atactgatt gttatttat aataaatat 
      atttatttt gttttatat taaaatgta gcgattttg 
      tttgaaggg tttgcgtgc gtttttgta aaaatgata 
      aaagtacaa gtgtaaata aagttttca caggaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY