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Gene information
General information
TC008669 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_007422.5: 13816407..13818450
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
    TC008669
    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_08814

    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


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: 3 - Number of animals showing the phenotype: 4
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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: % (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
    • >TC008669 RA
      MSDNPELIS QFTAITGVD EDRAKFYLE SSAWKLDVA 
      ISRYYENDG GEISEDNTP DQPSESEQS HQAAPPRPK 
      SKTTNSNFA TLNTLTTSS DEEEEEGQA FYAGGSEHS 
      GQQVLGPSK KKDIVSGMF KSVQKHGVE IVDQKPGGS 
      KLFKGKGYK LGQTADDSE EVEGAAGPA PSPEVTLKL 
      WKDGFTVNE GELRAYTDP ANTEFLQSI QRGEIPQEL 
      RQGNTEVYL AMEDHRMES FKQVDKGVK PFTGQGYTL 
      GSPAPPVVG AQREEDKPA NEERAKQAL KLDSSQPTT 
      NIQIRLSDG SRLVAQFNH THTVGDVRQ YILTARPQY 
      QTRNFNLLS GYPSRILED SQSLAEGNL LNSAIMQKL 
      I
    CDS sequence
    • >TC008669 RA
      atgagtgat aatcccgaa ctgatctcc caattcact 
      gcgataaca ggtgttgac gaagacagg gcaaagttt 
      tacttagaa tcttcggcc tggaaactc gatgtggct 
      atcagcaga tattatgaa aatgacggt ggtgagata 
      agtgaggac aatacacca gaccagcct tccgaatca 
      gagcagtcc caccaagcg gcgcctccg cggccaaaa 
      tcaaaaacc acaaattcg aactttgcc actttaaac 
      accttaaca acctcgagt gacgaggag gaagaagag 
      ggtcaagcg ttctatgcg ggcgggtct gagcacagc 
      ggccagcag gttttaggg ccttccaag aaaaaagac 
      attgtctca gggatgttt aaatccgtg caaaaacat 
      ggggtagag atagttgat cagaaacca gggggctcg 
      aaacttttc aagggcaag gggtacaag ttggggcaa 
      acggctgat gattctgag gaggttgag ggggctgct 
      gggccggcg ccttcacct gaagtcact ttaaagctc 
      tggaaggac ggttttacg gtgaatgag ggagagctg 
      agggcttac actgatcct gcaaatact gagtttttg 
      caaagtatt cagaggggc gagattccg caagagctg 
      cgacaaggc aatactgag gtttatcta gcaatggag 
      gaccacaga atggaatct ttcaaacag gttgataaa 
      ggggttaag ccgtttaca ggacagggg tacacttta 
      ggtagccct gcgccccct gtggtcgga gcacaaaga 
      gaagaggat aaaccagcc aatgaagaa cgtgctaaa 
      caagcttta aaactagat tcttcccag ccaacgaca 
      aatatccaa attcgctta tctgacggt tcaagactt 
      gttgcccaa tttaatcac actcatact gtgggagac 
      gtgcgtcag tacatctta acagccaga ccccagtac 
      caaacaaga aatttcaat ctactgtca gggtatcca 
      tcccgaatt ttggaagat tctcaatct ctagctgaa 
      ggaaatttg cttaattct gctattatg caaaaatta 
      atttaa
    mRNA sequence
    • >TC008669 RA
      tgtcataaa agattgttt tttaatata aaaataccg 
      tacaattgt atttacagc gtttagtgt ttctttgga 
      ccaagaaaa tagtctaaa ctgaacaaa aatgagtga 
      taatcccga actgatctc ccaattcac tgcgataac 
      aggtgttga cgaagacag ggcaaagtt ttacttaga 
      atcttcggc ctggaaact cgatgtggc tatcagcag 
      atattatga aaatgacgg tggtgagat aagtgagga 
      caatacacc agaccagcc ttccgaatc agagcagtc 
      ccaccaagc ggcgcctcc gcggccaaa atcaaaaac 
      cacaaattc gaactttgc cactttaaa caccttaac 
      aacctcgag tgacgagga ggaagaaga gggtcaagc 
      gttctatgc gggcgggtc tgagcacag cggccagca 
      ggttttagg gccttccaa gaaaaaaga cattgtctc 
      agggatgtt taaatccgt gcaaaaaca tggggtaga 
      gatagttga tcagaaacc agggggctc gaaactttt 
      caagggcaa ggggtacaa gttggggca aacggctga 
      tgattctga ggaggttga gggggctgc tgggccggc 
      gccttcacc tgaagtcac tttaaagct ctggaagga 
      cggttttac ggtgaatga gggagagct gagggctta 
      cactgatcc tgcaaatac tgagttttt gcaaagtat 
      tcagagggg cgagattcc gcaagagct gcgacaagg 
      caatactga ggtttatct agcaatgga ggaccacag 
      aatggaatc tttcaaaca ggttgataa aggggttaa 
      gccgtttac aggacaggg gtacacttt aggtagccc 
      tgcgccccc tgtggtcgg agcacaaag agaagagga 
      taaaccagc caatgaaga acgtgctaa acaagcttt 
      aaaactaga ttcttccca gccaacgac aaatatcca 
      aattcgctt atctgacgg ttcaagact tgttgccca 
      atttaatca cactcatac tgtgggaga cgtgcgtca 
      gtacatctt aacagccag accccagta ccaaacaag 
      aaatttcaa tctactgtc agggtatcc atcccgaat 
      tttggaaga ttctcaatc tctagctga aggaaattt 
      gcttaattc tgctattat gcaaaaatt aatttaagt 
      tatttgtga aattccctt catgattga aacataatt 
      tattaggac aatttttct tttgataat gtactatta 
      caaacatta gatattaaa atttcaaaa gtattaact 
      gcgtttttt taaaacccg aggtgtggg gtgttgtcc 
      tctgaaaag tttcggttg aattcacat tctggcgcg 
      caagtcagt tgttagtca ctgtatgag tttttggta 
      ttttttaaa cgattaatt atttaatta ataacaaac 
      atgccaagc aaggactac gaagagcca aagaaacaa 
      gtcgacgaa atgccacaa cccgaaaat cctcaagtt 
      cgggagctc gacttaacg gataagtta aataaaaac 
      ctcctgcaa tcatttctg tcacgcttg aaccagtct 
      gatgagggc ttgaaaaaa tttatggtg ccaaacact 
      aattctaat agtgataat aattttgaa taaaggatt 
      aattaaaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY