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Gene information
General information
TC003316 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_007418.3: 1153717..1155561
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
    TC003316
    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_10972

    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)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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): 30% - 50%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva partially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva potentially circumference decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    head appendages position irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    head appendages swollen - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    head swollen - Penetrance (percentage of animals/eggs on slide): more than 80%

    head shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    legs swollen - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    legs size decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    legs podomer potentiallynumber decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    thorax swollen - Penetrance (percentage of animals/eggs on slide): more than 80%
    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    abdomen posterior dorsalbent - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segment posterior circumference decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen swollen - Penetrance (percentage of animals/eggs on slide): more than 80%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 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: % (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
    • >TC003316 RA
      MSKNKDVEL KNFFIFNSL YGPKEGEEL KKILYYYPI 
      SDNADVQIK NVGLVEGII QFTGTFKPS TPVNSLHTQ 
      KMRQLYFQP EKNMWIVLT LTLPTEVKG KDSSTQIEY 
      LEDDVQDNV YEAVLKQAY YTYRLFWGT FEHTIENHD 
      VGTLKTRLE SFYKAYLKT LKLGHADIL NVFHGIQYL 
      PLDKLTFLK VQCFINSLE CEYPEIAYT AFLYNDHLI 
      WSGFEPKDM KIVYQYLIG TLLPANMEA ELQGGSMPR 
      NSVSPFAAL HHGRFITGP TNLKTAKNV GKIPKVYLF 
      ASGKAESYN LVVYRALSA SVCLFMRAD KELSLQYFK 
      DMDEFISPK LTAIVSDIS EYCSKQVIT PSNVPENAP 
      RFIYFNKLN LAYKSTAHL DNKQTGNIA CTKESLKIM 
      ADLNNKRSL LGHSSETIV KTMNDYWVV AKNSNSREF 
      YVALQQKNA SLIDISEEI KKLCDTELK GIFFHPL
    CDS sequence
    • >TC003316 RA
      atgagtaaa aacaaagac gtggagtta aaaaacttt 
      tttattttc aattctcta tatggcccc aaggaaggg 
      gaggaactg aaaaaaatt ctttattat tatccaata 
      tctgacaat gccgatgta caaataaag aatgtgggg 
      ttagttgag gggatcatt caattcact ggcacattt 
      aaaccaagc actccagtg aattcacta catacgcaa 
      aaaatgcgt caattgtat ttccaacca gaaaaaaat 
      atgtggatt gttttgacg ttaacttta ccaaccgaa 
      gttaagggg aaggacagt tcaactcaa atcgaatat 
      ctcgaggat gatgtacaa gacaatgtt tacgaagcc 
      gtcttaaaa caagcctat tacacgtat agacttttc 
      tggggcact tttgaacac acgattgag aaccacgat 
      gtgggcaca cttaaaaca agacttgaa agtttctat 
      aaagcttat ctgaaaacc ttaaaacta gggcatgct 
      gatattctg aacgtgttc cacggaatt cagtatctg 
      cctcttgac aaactaact tttttaaaa gtccaatgt 
      tttatcaat tcacttgaa tgcgagtat cccgaaatt 
      gcgtacaca gcgttctta tacaacgat catctcata 
      tggagcggt tttgaaccc aaagacatg aaaattgtg 
      taccaatat ttaattggc actttactg cccgccaac 
      atggaggct gaacttcaa gggggctca atgccccgt 
      aattctgtt tcacctttt gctgcatta catcacggt 
      cgtttcatt acgggacct acaaattta aaaacagcc 
      aaaaatgtg gggaaaata cccaaagtt tatttattt 
      gcctcaggg aaggccgag tcctacaac ttggtggtt 
      tatagggcg ctaagtgcg tccgtttgt ttatttatg 
      agagccgac aaggagtta agtttgcaa tatttcaaa 
      gacatggac gagttcatt agccccaaa ttgactgca 
      atcgtgtca gatatttcc gaatattgt tccaaacaa 
      gtgattacg ccatcaaat gtccccgaa aacgctcca 
      aggtttatc tatttcaat aaattgaat ttggcttac 
      aaaagcaca gcgcatttg gataataaa caaacggga 
      aacattgca tgtaccaaa gaatcttta aaaataatg 
      gctgatttg aacaataag agatcactg ttgggccac 
      tctagcgag acgatagtc aaaacaatg aatgactat 
      tgggttgtt gcgaaaaac tcgaattct agagaattt 
      tacgtggct ttgcagcag aaaaatgca agtcttatc 
      gacataagc gaagaaata aaaaaattg tgtgatacc 
      gaattaaaa ggcatcttc ttccaccca ctgtag
    mRNA sequence
    • >TC003316 RA
      tagtaaaaa ttttggact tgaaaaatt tgtttctaa 
      aaacataat attattcaa taagtttcg aaccggaat 
      tatgagtaa aaacaaaga cgtggagtt aaaaaactt 
      ttttatttt caattctct atatggccc caaggaagg 
      ggaggaact gaaaaaaat tctttatta ttatccaat 
      atctgacaa tgccgatgt acaaataaa gaatgtggg 
      gttagttga ggggatcat tcaattcac tggcacatt 
      taaaccaag cactccagt gaattcact acatacgca 
      aaaaatgcg tcaattgta tttccaacc agaaaaaaa 
      tatgtggat tgttttgac gttaacttt accaaccga 
      agttaaggg gaaggacag ttcaactca aatcgaata 
      tctcgagga tgatgtaca agacaatgt ttacgaagc 
      cgtcttaaa acaagccta ttacacgta tagactttt 
      ctggggcac ttttgaaca cacgattga gaaccacga 
      tgtgggcac acttaaaac aagacttga aagtttcta 
      taaagctta tctgaaaac cttaaaact agggcatgc 
      tgatattct gaacgtgtt ccacggaat tcagtatct 
      gcctcttga caaactaac ttttttaaa agtccaatg 
      ttttatcaa ttcacttga atgcgagta tcccgaaat 
      tgcgtacac agcgttctt atacaacga tcatctcat 
      atggagcgg ttttgaacc caaagacat gaaaattgt 
      gtaccaata tttaattgg cactttact gcccgccaa 
      catggaggc tgaacttca agggggctc aatgccccg 
      taattctgt ttcaccttt tgctgcatt acatcacgg 
      tcgtttcat tacgggacc tacaaattt aaaaacagc 
      caaaaatgt ggggaaaat acccaaagt ttatttatt 
      tgcctcagg gaaggccga gtcctacaa cttggtggt 
      ttatagggc gctaagtgc gtccgtttg tttatttat 
      gagagccga caaggagtt aagtttgca atatttcaa 
      agacatgga cgagttcat tagccccaa attgactgc 
      aatcgtgtc agatatttc cgaatattg ttccaaaca 
      agtgattac gccatcaaa tgtccccga aaacgctcc 
      aaggtttat ctatttcaa taaattgaa tttggctta 
      caaaagcac agcgcattt ggataataa acaaacggg 
      aaacattgc atgtaccaa agaatcttt aaaaataat 
      ggctgattt gaacaataa gagatcact gttgggcca 
      ctctagcga gacgatagt caaaacaat gaatgacta 
      ttgggttgt tgcgaaaaa ctcgaattc tagagaatt 
      ttacgtggc tttgcagca gaaaaatgc aagtcttat 
      cgacataag cgaagaaat aaaaaaatt gtgtgatac 
      cgaattaaa aggcatctt cttccaccc actgtagga 
      tttggtaca aaaaaaaac acgattttt attgcaaaa 
      a
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