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Gene information
General information
TC009931 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: 11700764..11705550
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
    TC009931
    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_04727

    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: 20.0% (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


    Fertility
    vitellarium mostlydecreased - Number of animals showing the phenotype: 4

    egg chamber mostlynot present - Number of animals showing the phenotype: 4

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20
    4 on slide
    embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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): 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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 50.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection


    Fertility
    egg production: number no/almost no eggs -
    egg chamber number decreased - Number of animals showing the phenotype: 4

    mature egg not present - Number of animals showing the phenotype: 4

    tropharium shortened - Number of animals showing the phenotype: 4

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009931 RA
      MNEAKRLKL EVSTKAALT PVLADDLTQ ELPLIEVYL 
      ATIKDPKTI SRVVVELNS LLPVPELTH LKRVKGREI 
      LLFPKEIVE RDNVTKFLS GKGFNTNLI ESDIKVGKV 
      AQIAPKVRK QYEVVHKLW PCNFHSNPY LEKLSTNSL 
      FTQSELEKH AEFMRIAID ICEITGVRE SAVVVDPVG 
      GTVVAFGFD LTQEYPVKH AVMVAIDEV ARTQKGGVW 
      ERHQDYEKI QTFVETKYK NLGFGFSNS AEGPYLCTG 
      YSVYCTTEP CITCAMALV HSRAKRVFY GVKSAKGAL 
      GSLCKIHVV ENLNHHYEA FSGLLEEEC RA
    CDS sequence
    • >TC009931 RA
      atgaacgaa gcgaaaaga ctaaaatta gaagtgtca 
      acgaaagct gcgttaact ccagtttta gcggacgat 
      ttaacccag gaattgcca cttatcgaa gtttattta 
      gccacaatc aaggacccc aaaaccata tccagggtt 
      gtagttgag ttgaattca ctgttgcca gttcccgaa 
      ctcactcat ctgaagcga gtcaaaggg agggaaatt 
      ctacttttc cccaaggaa attgtggag agggataat 
      gtcacaaaa tttttgtct ggaaaaggg ttcaatacc 
      aacctaatt gagagtgac atcaaagtg gggaaagtg 
      gcccaaatc gcgccaaaa gtgcgcaag cagtacgaa 
      gtggtccac aagctgtgg ccgtgcaat ttccacagc 
      aatccctac ctggaaaag ctcagcacg aattcgctt 
      ttcacgcaa agtgagttg gaaaagcac gctgagttc 
      atgaggatt gcgatcgat atttgcgaa atcacggga 
      gttagggag agtgcagtt gtggttgat cctgttggt 
      ggcaccgtt gtggctttt gggttcgac ttgacccag 
      gaataccct gtcaagcat gccgtgatg gtggccatt 
      gacgaggtg gcaaggact cagaaagga ggcgtctgg 
      gagagacac caggactac gaaaaaatt cagactttc 
      gttgaaacg aaatacaag aatttgggg tttgggttc 
      agcaattcg gccgagggt ccctacctg tgcaccggc 
      tattccgtt tattgtacc actgaaccg tgcatcact 
      tgtgccatg gctctggtg cacagtcgc gcgaaacgg 
      gttttctac ggtgtcaaa agtgccaaa ggtgctttg 
      gggagtttg tgcaaaatt catgtagtg gagaatttg 
      aaccatcat tacgaggcg ttttccgga ctgttggaa 
      gaggaatgc cgagcttga
    mRNA sequence
    • >TC009931 RA
      accggatca aacagcgaa ctgccaaac atttcaatt 
      ctgttatca cctgaaata acaggttgt gtgttcctt 
      atctaattt ttcttttcc caatgtttc aagtcccaa 
      ttggtttca tttcggatg ttgtttgcg cgtttttta 
      atgtgagat aagacctaa tcagtgtta cgtacctgt 
      caagttgtt cacgttgtc tgtctaagg tgtggcgag 
      gtcgatgaa gattcggaa ggaaggaaa attgtgtaa 
      aacatgtca caaagttgg caaagccaa caaagtgaa 
      tgaatcttt gtgacgcgt ctgcaaaag aaaatgaac 
      gaagcgaaa agactaaaa ttagaagtg tcaacgaaa 
      gctgcgtta actccagtt ttagcggac gatttaacc 
      caggaattg ccacttatc gaagtttat ttagccaca 
      atcaaggac cccaaaacc atatccagg gttgtagtt 
      gagttgaat tcactgttg ccagttccc gaactcact 
      catctgaag cgagtcaaa gggagggaa attctactt 
      ttccccaag gaaattgtg gagagggat aatgtcaca 
      aaatttttg tctggaaaa gggttcaat accaaccta 
      attgagagt gacatcaaa gtggggaaa gtggcccaa 
      atcgcgcca aaagtgcgc aagcagtac gaagtggtc 
      cacaagctg tggccgtgc aatttccac agcaatccc 
      tacctggaa aagctcagc acgaattcg cttttcacg 
      caaagtgag ttggaaaag cacgctgag ttcatgagg 
      attgcgatc gatatttgc gaaatcacg ggagttagg 
      gagagtgca gttgtggtt gatcctgtt ggtggcacc 
      gttgtggct tttgggttc gacttgacc caggaatac 
      cctgtcaag catgccgtg atggtggcc attgacgag 
      gtggcaagg actcagaaa ggaggcgtc tgggagaga 
      caccaggac tacgaaaaa attcagact ttcgttgaa 
      acgaaatac aagaatttg gggtttggg ttcagcaat 
      tcggccgag ggtccctac ctgtgcacc ggctattcc 
      gtttattgt accactgaa ccgtgcatc acttgtgcc 
      atggctctg gtgcacagt cgcgcgaaa cgggttttc 
      tacggtgtc aaaagtgcc aaaggtgct ttggggagt 
      ttgtgcaaa attcatgta gtggagaat ttgaaccat 
      cattacgag gcgttttcc ggactgttg gaagaggaa 
      tgccgagct tgacgttac ccttaattt gtgtacaag 
      ctgtgggat taaagcgag tgattcctt gacctctat 
      agaatagat agtcgttaa acttttgtt atacgagat 
      aacgctcgc tttgattac agatattga cagaaacat 
      tttatttga aacgtcgtg ttagtcgtg aagtgctag 
      gttttgtta ttatggagc tttcggtga gttgtaatt 
      ggttttgcg gtaatgaaa ttttgcgcc gaaacaagt 
      gcgtcatca gccttagat aacgtaaaa tttgtgcac 
      ttgtccaaa tcacgcttt tgtcgcgtt atgtaagga 
      cgattttac taaatgtag catgtattc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY