Status
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Gene information
General information
TC000875 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: 7591741..7594910
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
    TC000875
    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_09621

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (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: > 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: % (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
    • >TC000875 RA
      MDVISQHLT ILKTGVNNS FAGKEPWQI VTITTTSVL 
      FFVWLHEFF NQEETVTQR AKKTIFKLV KLIPSVRQK 
      FETELAKVS ESFEKETVE KTKHLTYIT KLPEKKLTA 
      EQILNCVEE NLKVGDYDW KGGLVSGAV YYHNPALIK 
      LVTEVYGLT SYTNPLHPD LFPGLCKME AEVIRMSCN 
      LFYGDENSC GIVTTGGTE SIVMACKAW RDYAREVRG 
      IRKPEIIVP VTAHSAFDK AAQYLRMRV RSIPVDPQT 
      TKANIKAMK RAINCNTIL LVGSAPNFP YGTMDDIEA 
      ISALGVKYN IPVHVDSCL GGFLTVFME DAGYPVPLC 
      DFRLPGVTS ISADTHKYG FAPKGSSVV LYRDKKYRH 
      YQYTVTTDW PGGVYGSPT LAGSRAGGN IAVCWAAML 
      NFGKEGYVQ ATRDIIHTT RYIEKGLRR MKGIFIFGQ 
      PATSVIALG SNDFHIYRL GSALNKLGW NLNVLQFPS 
      GIHICVTHM HTQQGVADK FLNDVQNSL AEILKEPDV 
      PVEGKMAIY GVAQSVPDR SIVTDFTRL FLDSMYYTP 
      KTT
    CDS sequence
    • >TC000875 RA
      atggatgtt atatcccaa cacctaact attctaaaa 
      accggggtt aataactcc tttgctggg aaagaacct 
      tggcaaata gtcacaatc accacgaca agtgtgctg 
      ttttttgtc tggcttcat gaatttttc aaccaagaa 
      gaaactgtt acccaaagg gcgaaaaag acaattttc 
      aaattagtc aagttgata ccaagcgtt agacagaag 
      tttgaaaca gaattggct aaagtttct gaatcgttt 
      gagaaagaa acagtggaa aagaccaaa cacttgacc 
      tacatcacc aaactgcct gaaaaaaag ttaaccgct 
      gagcagatt ttgaactgc gttgaggag aatttgaaa 
      gtgggtgat tatgactgg aaagggggc ctcgtctca 
      ggggctgtg tactaccac aaccccgct ctaataaag 
      cttgtcact gaagtgtac ggcctaacg tcctacacc 
      aaccccctt catccagac cttttcccc ggtttatgc 
      aaaatggaa gctgaagtg atccgtatg tcttgcaat 
      cttttttac ggtgacgaa aactcttgt ggaatagta 
      accaccgga ggcaccgaa tccatcgtc atggcctgc 
      aaagcctgg cgtgactac gctcgcgaa gtgcgtgga 
      atccggaaa ccggaaata atcgttccg gttacggcc 
      cattccgcg tttgacaaa gctgcccaa tatctccgg 
      atgagagtc aggtcgatt ccggtcgat cctcaaacg 
      actaaagcc aacatcaag gctatgaaa cgtgccatt 
      aattgcaac acgatttta ttggtaggt tccgctccc 
      aattttccg tacggaact atggacgat atcgaggcg 
      atttccgcc ctaggtgtg aaatataat attcccgtg 
      catgtcgat tcttgcctt gggggtttt ttgactgtg 
      tttatggag gatgccgga tatccggta ccgttatgc 
      gatttcagg ctaccaggg gttacgagt atttcagct 
      gatacgcac aagtatgga tttgcaccg aaggggtcc 
      tcggtggtg ctttacagg gataaaaag tacaggcat 
      tatcaatat acggtcacc actgactgg cctggcggt 
      gtttatggt tctccgact cttgccggg tcacgtgct 
      gggggtaat atagccgtt tgttgggcc gcaatgctc 
      aatttcggg aaagagggc tatgtacag gctactaga 
      gacattatt cataccacg cgatacatc gaaaaagga 
      ctgagaaga atgaaaggc atttttatt tttggccaa 
      cctgccaca agtgttatc gctttaggg tcgaatgat 
      tttcatatt tatcgactt ggatcggct ttaaataag 
      cttgggtgg aatttgaac gtcttgcaa ttcccgtcg 
      ggcattcac atatgtgtc acgcatatg cacacgcaa 
      cagggtgtc gccgataaa tttttgaat gacgtccaa 
      aacagcctc gccgaaatt ttgaaggaa ccggatgtc 
      cctgttgag ggaaaaatg gcaatatac ggggtggcc 
      caaagtgtg ccagacagg tcgattgtg accgacttc 
      acaagatta tttttggat tcaatgtac tacactccg 
      aaaacaaca taa
    mRNA sequence
    • >TC000875 RA
      tgtaacccc aaatttcct aatcatcat aaaaatgtt 
      tataataaa tatttgtac cagttaaca ataacaagt 
      tacgtttta ttatgccag cgaacgtta agccttaac 
      ttttttatt tctccgaga gtcataagt cgtgtttca 
      agtgcttta cttcaggtg ccccttatc agataatac 
      ttttgatta aagtgattt tttatgaaa gcggttaat 
      cttttacgt aactttcgc catggatgt tatatccca 
      acacctaac tattctaaa aaccggggt taataactc 
      ctttgctgg gaaagaacc ttggcaaat agtcacaat 
      caccacgac aagtgtgct gttttttgt ctggcttca 
      tgaattttt caaccaaga agaaactgt tacccaaag 
      ggcgaaaaa gacaatttt caaattagt caagttgat 
      accaagcgt tagacagaa gtttgaaac agaattggc 
      taaagtttc tgaatcgtt tgagaaaga aacagtgga 
      aaagaccaa acacttgac ctacatcac caaactgcc 
      tgaaaaaaa gttaaccgc tgagcagat tttgaactg 
      cgttgagga gaatttgaa agtgggtga ttatgactg 
      gaaaggggg cctcgtctc aggggctgt gtactacca 
      caaccccgc tctaataaa gcttgtcac tgaagtgta 
      cggcctaac gtcctacac caaccccct tcatccaga 
      ccttttccc cggtttatg caaaatgga agctgaagt 
      gatccgtat gtcttgcaa tctttttta cggtgacga 
      aaactcttg tggaatagt aaccaccgg aggcaccga 
      atccatcgt catggcctg caaagcctg gcgtgacta 
      cgctcgcga agtgcgtgg aatccggaa accggaaat 
      aatcgttcc ggttacggc ccattccgc gtttgacaa 
      agctgccca atatctccg gatgagagt caggtcgat 
      tccggtcga tcctcaaac gactaaagc caacatcaa 
      ggctatgaa acgtgccat taattgcaa cacgatttt 
      attggtagg ttccgctcc caattttcc gtacggaac 
      tatggacga tatcgaggc gatttccgc cctaggtgt 
      gaaatataa tattcccgt gcatgtcga ttcttgcct 
      tgggggttt tttgactgt gtttatgga ggatgccgg 
      atatccggt accgttatg cgatttcag gctaccagg 
      ggttacgag tatttcagc tgatacgca caagtatgg 
      atttgcacc gaaggggtc ctcggtggt gctttacag 
      ggataaaaa gtacaggca ttatcaata tacggtcac 
      cactgactg gcctggcgg tgtttatgg ttctccgac 
      tcttgccgg gtcacgtgc tgggggtaa tatagccgt 
      ttgttgggc cgcaatgct caatttcgg gaaagaggg 
      ctatgtaca ggctactag agacattat tcataccac 
      gcgatacat cgaaaaagg actgagaag aatgaaagg 
      catttttat ttttggcca acctgccac aagtgttat 
      cgctttagg gtcgaatga ttttcatat ttatcgact 
      tggatcggc tttaaataa gcttgggtg gaatttgaa 
      cgtcttgca attcccgtc gggcattca catatgtgt 
      cacgcatat gcacacgca acagggtgt cgccgataa 
      atttttgaa tgacgtcca aaacagcct cgccgaaat 
      tttgaagga accggatgt ccctgttga gggaaaaat 
      ggcaatata cggggtggc ccaaagtgt gccagacag 
      gtcgattgt gaccgactt cacaagatt atttttgga 
      ttcaatgta ctacactcc gaaaacaac ataagtgaa 
      ctgaagatc acattattg tatggtgat aatgataac 
      cgataatat aaaataaaa caaaaagcg attttttgg 
      tcaaattgg ataataaca attgaacgc gtaactgat 
      gcgaattta attccgtcg tccttgtgg aaaattcat 
      ttgttttta tcgccaact aaatacatt ttatctggc 
      gtaatgggg caataaaaa ccttcatta gta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY