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Gene information
General information
TC006553 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_007423.3: 11380819..11386439
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
    TC006553
    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
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    Name
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    Email
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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01060

    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: 10.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (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): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 11.11% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 44.44% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection


    Fertility
    egg production: number no/almost no eggs -
    mature egg not present - Number of animals showing the phenotype: 4

    vitellogenic egg chamber increased - Number of animals showing the phenotype: 4
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006553 RA
      MTSCETVRT IPLVIERET PMEAEDVES GYPFERDDR 
      EDPFRSELD DIANRHPEF AEHLGGFPF RSDSLGRRF 
      RQNRPSEEE FRRFGRPFG SRFERFGFP FNRDPFQDD 
      FEEPKQPEP KQETQPPQN QPENPPPER SRKQQNIQQ 
      SNTVDLGQK QEPVNERNQ RSMSAPPPD NRQRYTSSI 
      HIPINREGM AEMGTAQSQ TQPQQDKPP VNKPTERVI 
      PIHVEGRDE PVIPKHTGP SYTQQQPQP ERIFGHRPS 
      QFTQYVGRE SPKPEWQQQ GPEVRQQKF QQTAAPPPP 
      EVPVQKPQE QPPPPKPSN NPIDIIQSI QKDVSELMS 
      QVEKFNGVP KDKQYLYLD EMLTRNLIK LDNIDTQGQ 
      ENIRQARKE AIKCIESCI GILEAKAAA NVQQTGEQV 
      GETPESKDE SQVVEEKMD VEVKDEPKV EEAKSEPEV 
      KEEKMDVAP PAAPTTEVV AEPVTVEQP KEEKPKESE 
      TETKPPTDE EMKDESKAE EKKEEASEA KEEDSKEKK 
      KGGKKKVVK K
    CDS sequence
    • >TC006553 RA
      atgacgtct tgcgagacg gtgcggacg attccgctc 
      gttattgaa cgggaaacc cccatggag gctgaagat 
      gtcgaaagc ggctatccc ttcgaacgc gacgacaga 
      gaggaccct ttccggtcc gaattggat gacattgcc 
      aaccgtcac ccagaattc gccgaacat ttgggcggc 
      tttcccttc cgcagtgac agtctaggc cgcaggttc 
      cgacagaac cggccttca gaggaggag ttccgccgg 
      ttcgggcga cctttcggt tcgaggttc gaacggttc 
      ggttttccc ttcaacagg gacccgttt caggacgat 
      ttcgaggaa ccaaaacaa ccggaaccg aaacaagag 
      acacaaccc ccacaaaac caaccggaa aatccgccg 
      ccggagcga agccgcaaa caacagaac atccaacag 
      agcaatacc gtagaccta ggccagaag caagaaccg 
      gtgaatgag agaaatcag cgatcgatg tctgcgcca 
      ccgccggat aaccgccaa agatacact tcgagcatt 
      cacataccc atcaaccga gagggtatg gcagagatg 
      ggaacggcc cagagtcaa acccagcca cagcaagac 
      aaaccgccg gttaataaa ccgaccgaa cgcgttata 
      cccatccat gtagaaggc cgtgacgaa ccggttata 
      ccgaaacac acgggaccc tcctacacc caacaacaa 
      ccccaaccg gagcgaatc ttcggtcac aggcctagt 
      caattcacc cagtacgtc gggagggaa tccccgaag 
      cccgagtgg caacaacaa ggcccggag gtgcggcag 
      caaaaattc caacaaacg gcggcgcca ccacccccg 
      gaggttcca gtccagaaa ccacaagaa caaccgcca 
      ccacccaaa ccctccaac aaccccatc gatatcatc 
      caatccatc caaaaggac gtttccgag ttaatgtcg 
      caggtcgag aagttcaac ggcgtcccc aaagacaaa 
      caatatctc tacctggac gaaatgttg accaggaac 
      ctcatcaag ttggacaac atcgacacg caaggccag 
      gagaacatc cggcaggcg cggaaagaa gcaatcaag 
      tgcattgag agctgcatt gggattttg gaagccaaa 
      gctgcagcg aatgttcaa caaaccggc gaacaagtc 
      ggcgaaacc cccgaaagt aaggacgaa tctcaggtt 
      gtggaggag aaaatggac gtggaagta aaagatgag 
      ccaaaggtt gaggaggct aaaagcgag cccgaggtc 
      aaggaggag aagatggac gtggctccg ccagcggct 
      cccacgacg gaagtggtg gcggaacca gtaactgtt 
      gaacaaccc aaagaggaa aaaccgaag gaaagtgag 
      acagagact aaaccgcca acggacgaa gaaatgaaa 
      gatgagagc aaggcggag gagaagaag gaggaagcg 
      agtgaggcg aaggaggag gatagcaag gagaagaaa 
      aaggggggg aagaagaaa gttgttaaa aagtaa
    mRNA sequence
    • >TC006553 RA
      gccggtgtg cgttttttg cctcgttac aattgcgta 
      aaaagcgcg ggcgtgtcg cagtttgcg cgcataatt 
      ccagatgat tccgtgccg ttcatctgg cgaatttta 
      gcacaaatt ggttaaatt tggcctcct gacaagcat 
      taattgtgt gagaaccga aattcgggg gtgttctag 
      tgcgcgaat aggggttgg tgtgcgatt ccacgagtt 
      gaagactga gatacgatg ccttttccc cgctcgcat 
      ttttgctaa ataaatcaa aatgacgtc ttgcgagac 
      ggtgcggac gattccgct cgttattga acgggaaac 
      ccccatgga ggctgaaga tgtcgaaag cggctatcc 
      cttcgaacg cgacgacag agaggaccc tttccggtc 
      cgaattgga tgacattgc caaccgtca cccagaatt 
      cgccgaaca tttgggcgg ctttccctt ccgcagtga 
      cagtctagg ccgcaggtt ccgacagaa ccggccttc 
      agaggagga gttccgccg gttcgggcg acctttcgg 
      ttcgaggtt cgaacggtt cggttttcc cttcaacag 
      ggacccgtt tcaggacga tttcgagga accaaaaca 
      accggaacc gaaacaaga gacacaacc cccacaaaa 
      ccaaccgga aaatccgcc gccggagcg aagccgcaa 
      acaacagaa catccaaca gagcaatac cgtagacct 
      aggccagaa gcaagaacc ggtgaatga gagaaatca 
      gcgatcgat gtctgcgcc accgccgga taaccgcca 
      aagatacac ttcgagcat tcacatacc catcaaccg 
      agagggtat ggcagagat gggaacggc ccagagtca 
      aacccagcc acagcaaga caaaccgcc ggttaataa 
      accgaccga acgcgttat acccatcca tgtagaagg 
      ccgtgacga accggttat accgaaaca cacgggacc 
      ctcctacac ccaacaaca accccaacc ggagcgaat 
      cttcggtca caggcctag tcaattcac ccagtacgt 
      cgggaggga atccccgaa gcccgagtg gcaacaaca 
      aggcccgga ggtgcggca gcaaaaatt ccaacaaac 
      ggcggcgcc accaccccc ggaggttcc agtccagaa 
      accacaaga acaaccgcc accacccaa accctccaa 
      caaccccat cgatatcat ccaatccat ccaaaagga 
      cgtttccga gttaatgtc gcaggtcga gaagttcaa 
      cggcgtccc caaagacaa acaatatct ctacctgga 
      cgaaatgtt gaccaggaa cctcatcaa gttggacaa 
      catcgacac gcaaggcca ggagaacat ccggcaggc 
      gcggaaaga agcaatcaa gtgcattga gagctgcat 
      tgggatttt ggaagccaa agctgcagc gaatgttca 
      acaaaccgg cgaacaagt cggcgaaac ccccgaaag 
      taaggacga atctcaggt tgtggagga gaaaatgga 
      cgtggaagt aaaagatga gccaaaggt tgaggaggc 
      taaaagcga gcccgaggt caaggagga gaagatgga 
      cgtggctcc gccagcggc tcccacgac ggaagtggt 
      ggcggaacc agtaactgt tgaacaacc caaagagga 
      aaaaccgaa ggaaagtga gacagagac taaaccgcc 
      aacggacga agaaatgaa agatgagag caaggcgga 
      ggagaagaa ggaggaagc gagtgaggc gaaggagga 
      ggatagcaa ggagaagaa aaagggggg gaagaagaa 
      agttgttaa aaagtaaat agtctatgc cttattgtt 
      gataatctt gcttttaca aagctagga taacttaac 
      cattttatt tagtgagac tgactcgct tttagaaag 
      tcacagtgt aaataattc gtgtgtttg actgtgatt 
      gatgtgttt ttttcttta ccgtccgtt tttatttat 
      tgtaaataa atgattttg tacgctgta caattaaga 
      atcagagta ttaattgtg ccatgcatg atttgtaca 
      aataaattt ttagttgat caactgttc gttttattt 
      gttgtaaac gcaagatta ctttcatat caagttacg 
      cacagtatt tcattaaca gcccgcaac ttgtaaata 
      aatttttat cgactattt atcgaagat tgagcctta 
      gagtttgca gcttctgtg tgttcttaa tattaatac 
      ctcaaattg tataatttg ttattgtta ttttaatac 
      agtgcaaaa taaacg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY