Status
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Gene information
General information
TC009110 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: 4887089..4889206
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
    TC009110
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04594

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    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: 100.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 10 (22 dpi)
    Days post injection


    Adult morphology
    motility decreased - Number of animals showing the phenotype: 10 (19 dpi)
    Days post injection

    Comment: moving their legs very slow and aren't crawling around

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009110 RA
      MDPEAFLDI ANQVVKLKM FPYFDIAHC TLCALSVRE 
      DLGSGAQAF SRKHPLACW LSYMLVVFA GGMVANGLL 
      AEPILAPLK NTPQLIVAT LVWYVIFYT PIDLGYKLA 
      KFLPIKVVF SAMKEIYRC KKVYDGVTH AAKLYPNGY 
      LIMVIIGTL KGNGAGFTR LLERLMRGV WTPTAMEFM 
      QPSFYTKAS LVASIIFIL DKKTELISA PHALVYFGI 
      VIFFVYFKL SSILLGIHD PFVPFENLL CALFFGGIW 
      DSLAKILGR GQLKEGESK DAKKTN
    CDS sequence
    • >TC009110 RA
      atggatccg gaggcattc ctcgatatc gccaaccag 
      gtggtcaag ctcaagatg tttccctat ttcgacatt 
      gcgcactgc accttgtgc gccctgtcc gtcagggaa 
      gacctggga agcggcgct caggcattt tcgcgcaaa 
      catccccta gcatgctgg ttatcgtac atgttggtg 
      gtgtttgct ggcggaatg gtggcaaat ggactcttg 
      gcagaacct atccttgca cctctcaaa aatacgcca 
      caactaata gttgcaaca ctagtttgg tatgtgatt 
      ttttatact cctattgac ctggggtat aagcttgcg 
      aaatttctt ccaattaaa gtcgtcttc tctgccatg 
      aaagagatt tacagatgc aagaaagta tatgatgga 
      gtgactcac gccgctaag ctgtacccc aacggctat 
      cttattatg gtcattatt gggacctta aaaggtaac 
      ggggccgga tttacaagg ctactggaa cgtcttatg 
      agaggtgtg tggacccca acggctatg gaattcatg 
      caacccagt ttctacacg aaagcttcc cttgtcgct 
      tccatcatc ttcattctt gacaaaaag acggaactg 
      atttcggcg ccacatgcc ctagtttat ttcggaatt 
      gttatcttt tttgtttac ttcaaattg tcttccatt 
      ctgctggga atccacgat ccctttgtt ccctttgaa 
      aacctgcta tgtgcgttg ttcttcggc ggaatttgg 
      gacagtctg gccaaaatt ttgggcagg ggccagtta 
      aaggaaggt gaatccaaa gatgcgaaa aaaaccaac 
      taa
    mRNA sequence
    • >TC009110 RA
      acagccagt aaaacgcgt gaaaatttc cagactcct 
      gaaaatcct ctcccatct gaaggttta aaatagcgt 
      cgcgacgtc agggtcaga gtttgacgg cgtcgggcc 
      cagcgagct ataacctag tccgagcct ggcaatcag 
      ccattgaaa gtgtgtaga aatcaatag cctcatcat 
      ggatccgga ggcattcct cgatatcgc caaccaggt 
      ggtcaagct caagatgtt tccctattt cgacattgc 
      gcactgcac cttgtgcgc cctgtccgt cagggaaga 
      cctgggaag cggcgctca ggcattttc gcgcaaaca 
      tcccctagc atgctggtt atcgtacat gttggtggt 
      gtttgctgg cggaatggt ggcaaatgg actcttggc 
      agaacctat ccttgcacc tctcaaaaa tacgccaca 
      actaatagt tgcaacact agtttggta tgtgatttt 
      ttatactcc tattgacct ggggtataa gcttgcgaa 
      atttcttcc aattaaagt cgtcttctc tgccatgaa 
      agagattta cagatgcaa gaaagtata tgatggagt 
      gactcacgc cgctaagct gtaccccaa cggctatct 
      tattatggt cattattgg gaccttaaa aggtaacgg 
      ggccggatt tacaaggct actggaacg tcttatgag 
      aggtgtgtg gaccccaac ggctatgga attcatgca 
      acccagttt ctacacgaa agcttccct tgtcgcttc 
      catcatctt cattcttga caaaaagac ggaactgat 
      ttcggcgcc acatgccct agtttattt cggaattgt 
      tatcttttt tgtttactt caaattgtc ttccattct 
      gctgggaat ccacgatcc ctttgttcc ctttgaaaa 
      cctgctatg tgcgttgtt cttcggcgg aatttggga 
      cagtctggc caaaatttt gggcagggg ccagttaaa 
      ggaaggtga atccaaaga tgcgaaaaa aaccaacta 
      aattgactc aagttacga aaaaactaa atttgataa 
      agtgcggaa tatcaaatt tatttttct cgacttttg 
      attgaacca agacttgaa caaataaag tccttcgtc 
      tgac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY