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Gene information
General information
TC006807 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: 14493052..14496501
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
    TC006807
    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_06395

    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: 30.0% (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


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


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: - Number of animals showing the phenotype: 2
    ovary without detectable defects - Number of animals showing the phenotype: 2
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006807 RA
      MVFVVAQRL QAQNVPLDR TNLVLDEII SVLISKQLM 
      TELMKPQAT YGHEQVRDI IEDVTQSSM MRLDPTSMN 
      KLWDLITMV FKWQVTISK EVIPVTLRH LYEIENYVT 
      NPDTQLQLH KVQNLVDNF NKILSQKEK NELRDDIIY 
      WLKDVNVRV SLLLRMGLQ NMEGIFITE NLDPTAEKM 
      LGNLGENIY SVTNNGRIL EKNQNKAEP EVNELQLFV 
      DQILGERKL SNGNNDNRG FLRLAIDEQ NGNDNESTA 
      TFNNIDVNT DEKQVEDMM GDMVVGDKE DGSLRDDLL 
      EMIGGENCD
    CDS sequence
    • >TC006807 RA
      atggttttt gtcgttgct caaagacta caagctcaa 
      aatgtacca cttgaccga acgaattta gtgctggac 
      gagatcatt tctgtcctc atctccaag cagctcatg 
      acagaactg atgaagccc caagccacg tacgggcat 
      gagcaagtc cgtgatatc attgaagac gtcactcag 
      tcttcaatg atgcgtttg gaccccacc agcatgaac 
      aagctttgg gacctcatc accatggtc ttcaaatgg 
      caagtaacc atctccaaa gaggtgatt ccagtcact 
      ttacgccac ctctacgag attgaaaac tacgttaca 
      aatccagac acccaacta cagttgcac aaagttcaa 
      aatcttgtc gacaatttc aacaaaatt ctatcacag 
      aaagaaaag aatgaactg agagatgat atcatctac 
      tggttgaag gatgtcaat gtgcgcgtt tcgctacta 
      ctgaggatg ggtttgcaa aacatggaa ggcatcttc 
      ataacggag aatttggat ccgacagct gagaagatg 
      ttgggcaat ttgggagag aatatttac tcagtgact 
      aacaatggg aggattttg gaaaagaat cagaataaa 
      gcggaacca gaagtgaac gagttgcaa ttatttgtt 
      gaccagatc ttgggtgaa agaaaactg agcaatgga 
      aataacgat aaccggggt ttcctgcgt ttggcaatc 
      gacgaacag aatggaaat gacaacgaa tcaacagct 
      acgtttaat aatattgat gtcaacacc gatgagaag 
      caagtggag gatatgatg ggtgatatg gtggtcggt 
      gataaagag gatggatcc ctgagagat gatttattg 
      gaaatgatt gggggcgaa aattgtgat taa
    mRNA sequence
    • >TC006807 RA
      ttggcaaaa tgtcacact atgtaacac cttttgttg 
      tgctcaatc ttggctcag agatggttt ttgtcgttg 
      ctcaaagac tacaagctc aaaatgtac cacttgacc 
      gaacgaatt tagtgctgg acgagatca tttctgtcc 
      tcatctcca agcagctca tgacagaac tgatgaagc 
      cccaagcca cgtacgggc atgagcaag tccgtgata 
      tcattgaag acgtcactc agtcttcaa tgatgcgtt 
      tggacccca ccagcatga acaagcttt gggacctca 
      tcaccatgg tcttcaaat ggcaagtaa ccatctcca 
      aagaggtga ttccagtca ctttacgcc acctctacg 
      agattgaaa actacgtta caaatccag acacccaac 
      tacagttgc acaaagttc aaaatcttg tcgacaatt 
      tcaacaaaa ttctatcac agaaagaaa agaatgaac 
      tgagagatg atatcatct actggttga aggatgtca 
      atgtgcgcg tttcgctac tactgagga tgggtttgc 
      aaaacatgg aaggcatct tcataacgg agaatttgg 
      atccgacag ctgagaaga tgttgggca atttgggag 
      agaatattt actcagtga ctaacaatg ggaggattt 
      tggaaaaga atcagaata aagcggaac cagaagtga 
      acgagttgc aattatttg ttgaccaga tcttgggtg 
      aaagaaaac tgagcaatg gaaataacg ataaccggg 
      gtttcctgc gtttggcaa tcgacgaac agaatggaa 
      atgacaacg aatcaacag ctacgttta ataatattg 
      atgtcaaca ccgatgaga agcaagtgg aggatatga 
      tgggtgata tggtggtcg gtgataaag aggatggat 
      ccctgagag atgatttat tggaaatga ttgggggcg 
      aaaattgtg attaatagt taataaatg ttaagtaac 
      gaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY