Status
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Gene information
General information
TC004789 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_007416.3: 7235464..7240289
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
    TC004789
    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
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    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_03846

    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)

    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 5
    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): 30% - 50%

    embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 60.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection


    Fertility
    egg production: number <50% of expected -
    Comment: No phenotpe found!
    ovary without detectable defects - Number of animals showing the phenotype: 4
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004789 RA
      MANQYHKLE AKAVQELKD IANKIRIHS VSSTQTAKS 
      GHPTSCSSI AEILSVLFF NTMRYKISA PKDPSSDRF 
      VLSKGHAAP ALYAVWAEA GLFPVADLQ NLRKLGSDL 
      EGHPTPRLN FIDVGTGSL GQGLAIACG MAYVGKNFD 
      KASYRVYCL VGDGESAEG SIWESLHFA TYYKLDNLC 
      VIFDVNRLG QSEPTSLGH DIDTYRKRL EAFGFNVVA 
      VDGHDVEEL VKAFHVSCN TKGKPTAII AKTFKGKNF 
      PKIEDLENW HGKPLGDQA DRVLQHLKS LVKNTGPLQ 
      LHPQKPLTD DAPIVDISN IKLSSPPSY KIGDSIATR 
      VAYGTALVK LGQSNPRVI ALDGDMKNS TYSEALKKF 
      DPTRYIECF IAEQNLVGV AIGATCRDR TVAFVSTFA 
      TFLTRAYDQ IRMGAISQT NVNFCGSHC GVSIGEDGP 
      SQMGLEDIA MFRTIPGST VFYPADAVS TERAVELAA 
      NTKGVTFIR TNRPATAVI YPNNHVFQV GKSHVVKKS 
      NNDQVLVIG GGVTLQEAI GAANELAKA GVGVRVLDL 
      FTIKPIDKE GIIKNAKEC GGRILVVED HYYEGGIGE 
      AVLSAVAQE RNIAVKHVA VPKVPRSGS PTALLDYYG 
      LNSKHIVNY VQEAMKL
    CDS sequence
    • >TC004789 RA
      atggcaaat caataccac aaactcgaa gccaaggct 
      gtccaagag ctgaaggac atcgccaac aaaatccgg 
      atccattcg gtcagctcc acgcaaacg gcaaagtcg 
      gggcatcca acatcatgc tcgtcaatc gccgaaatt 
      ttatcggtc ctttttttc aacacaatg cgatacaaa 
      atatcagca ccgaaagac ccctcaagt gaccgcttt 
      gtcctttct aaaggtcac gccgctccg gcgctgtac 
      gcagtatgg gccgaggcg ggtcttttc cccgttgct 
      gatttacaa aacttgagg aaattgggg tcggacctc 
      gagggtcat ccaactcct cgcttgaat ttcattgat 
      gtagggaca ggctcgctg ggccaaggg ctggccatt 
      gcgtgcggc atggcctac gtgggcaaa aacttcgac 
      aaggccagt tatagggtg tactgcctg gtcggggat 
      ggggagagc gccgagggt tcaatctgg gaatcgctc 
      cattttgcg acttactac aagctcgat aatctctgc 
      gttatcttt gatgtgaac cgtctcggg caatctgag 
      cccacttct ctgggtcat gatatcgac acttacagg 
      aaacggttg gaagcgttc ggtttcaat gtagttgcc 
      gtcgatgga cacgacgtc gaagagctg gtgaaagcc 
      ttccacgtg tcgtgcaac accaaaggg aagcctacc 
      gcaatcatt gcgaaaact ttcaaaggg aagaacttc 
      cccaaaatt gaagatttg gaaaactgg cacgggaaa 
      ccactagga gatcaggcc gatcgtgtc ctccaacac 
      ctcaaatct cttgttaaa aacacgggg cctttgcaa 
      ctccacccc cagaagccc ctcaccgac gatgctccc 
      attgttgac atcagcaat attaaacta tcctcgcct 
      ccatcttac aaaatcggc gatagtatt gctacgaga 
      gtggcctac ggcactgct ttggtcaag ctcggccaa 
      agcaacccc cgagtcatt gcccttgac ggcgatatg 
      aaaaattca acatattcg gaagccctt aaaaaattt 
      gaccccacg agatacatc gaatgtttc atcgccgaa 
      cagaacctt gtcggggtt gccattggt gctacttgt 
      cgcgaccgc acagttgcc ttcgtttcc acctttgct 
      actttctta acccgtgct tatgaccag attcgtatg 
      ggggctatt tctcagaca aatgtcaat ttctgcggc 
      tctcattgt ggtgtcagt ataggcgaa gacggacca 
      agccagatg gggctggaa gacatcgct atgttccgg 
      accatcccc ggaagcact gtcttctac cccgctgat 
      gcggtctcc actgaacgt gccgtcgaa ctggccgcg 
      aacaccaaa ggagtcact ttcatcaga accaacaga 
      ccggccact gctgtcatc taccccaac aatcacgta 
      ttccaggtg ggcaagtcg cacgtggtg aagaagtcg 
      aacaacgac caagtcctg gttattggt ggcggagtg 
      accctgcag gaggccatc ggggccgcc aacgaattg 
      gctaaagcc ggtgttggt gtccgtgtt ttggatctg 
      ttcaccatc aagccaatt gacaaggag ggaataatc 
      aaaaacgcg aaagaatgc ggtgggcgt attctcgtc 
      gttgaagac cactactac gaggggggc attggcgag 
      gctgtcctt tcggcggtc gctcaggag cgcaacatc 
      gccgtgaaa cacgtggca gtgcccaaa gtgccccgc 
      tccgggagc cccaccgcc cttttggac tactacggc 
      ctcaacagc aaacacatt gtcaattac gtgcaagaa 
      gcaatgaag ttgtaa
    mRNA sequence
    • >TC004789 RA
      atcattcaa gtatcaact tatcgactt atcgtcaat 
      aattcagat ttgaaatat cgctaaata aaaacagat 
      tcgactcat gaataatta cacacaaca tgtattttg 
      caatggcct tgcaaatga taatgaaga gttattatt 
      gttacataa ctggaaact tattttctt taattaatg 
      caaaacatc aatcgcaaa atgcgccat tcttaattg 
      ccggcaata aagttttgc acagatgta aataatttt 
      atagcgttg ctatgggta gggaccctt taaatatcg 
      tgagtcagc aatacggaa cctcatttt tcaaggata 
      ggctctcat tgcagtaat tgcacttct attattgtc 
      cctcgtgtc atcctgcgc attaaacaa tgcaagatg 
      caccgtgtt tgtaaataa ataaaattc attcgagaa 
      aaatacaaa gtcaaaatt ttgacccga ttatatcat 
      ttttgatta tttataaac tctctgcag gggtgccgg 
      ggttacttg atagcacag ttgtcgata gtttgggaa 
      atttgggat gatttggcg ttattatat ctcagcttg 
      cgttttttt cgattttta tttataaat tctctgctg 
      gggttactc gataactta agcgttgat aatattgat 
      cgttatgga aaataaaat catgtggaa aatgtgtga 
      tttgatggt cacacaact gctgttacg gctgattcg 
      agtcatttg attcaattt ttggcgcca aaactggcc 
      catgtcttg cggtcattt cagtttgat tgaaaaata 
      tgtgttttt gactattgg aaaattgtg tgcgcatgc 
      ttccaggtg aaacgcgat tgccttgac tccgggcac 
      ctaaaaaat gtctcagag aaagtcccg agtcgaaaa 
      attggtgta ttttattta gaaatgtct tagcgttac 
      gtaattgtt atctgaccc agcttccaa tagcgtcaa 
      tgtacgtaa catagcttg atgttagcg aggtccgca 
      ttggctgtc cctcaaggt gtgtgcacg cctgccatt 
      taaccactt gttgattac atgctggtg ccaagtgaa 
      cgggttagc tctagctcc tgaccggtc tttccctcg 
      atgtccgct gatataatg gcaaatcaa taccacaaa 
      ctcgaagcc aaggctgtc caagagctg aaggacatc 
      gccaacaaa atccggatc cattcggtc agctccacg 
      caaacggca aagtcgggg catccaaca tcatgctcg 
      tcaatcgcc gaaatttta tcggtcctt tttttcaac 
      acaatgcga tacaaaata tcagcaccg aaagacccc 
      tcaagtgac cgctttgtc ctttctaaa ggtcacgcc 
      gctccggcg ctgtacgca gtatgggcc gaggcgggt 
      cttttcccc gttgctgat ttacaaaac ttgaggaaa 
      ttggggtcg gacctcgag ggtcatcca actcctcgc 
      ttgaatttc attgatgta gggacaggc tcgctgggc 
      caagggctg gccattgcg tgcggcatg gcctacgtg 
      ggcaaaaac ttcgacaag gccagttat agggtgtac 
      tgcctggtc ggggatggg gagagcgcc gagggttca 
      atctgggaa tcgctccat tttgcgact tactacaag 
      ctcgataat ctctgcgtt atctttgat gtgaaccgt 
      ctcgggcaa tctgagccc acttctctg ggtcatgat 
      atcgacact tacaggaaa cggttggaa gcgttcggt 
      ttcaatgta gttgccgtc gatggacac gacgtcgaa 
      gagctggtg aaagccttc cacgtgtcg tgcaacacc 
      aaagggaag cctaccgca atcattgcg aaaactttc 
      aaagggaag aacttcccc aaaattgaa gatttggaa 
      aactggcac gggaaacca ctaggagat caggccgat 
      cgtgtcctc caacacctc aaatctctt gttaaaaac 
      acggggcct ttgcaactc cacccccag aagcccctc 
      accgacgat gctcccatt gttgacatc agcaatatt 
      aaactatcc tcgcctcca tcttacaaa atcggcgat 
      agtattgct acgagagtg gcctacggc actgctttg 
      gtcaagctc ggccaaagc aacccccga gtcattgcc 
      cttgacggc gatatgaaa aattcaaca tattcggaa 
      gcccttaaa aaatttgac cccacgaga tacatcgaa 
      tgtttcatc gccgaacag aaccttgtc ggggttgcc 
      attggtgct acttgtcgc gaccgcaca gttgccttc 
      gtttccacc tttgctact ttcttaacc cgtgcttat 
      gaccagatt cgtatgggg gctatttct cagacaaat 
      gtcaatttc tgcggctct cattgtggt gtcagtata 
      ggcgaagac ggaccaagc cagatgggg ctggaagac 
      atcgctatg ttccggacc atccccgga agcactgtc 
      ttctacccc gctgatgcg gtctccact gaacgtgcc 
      gtcgaactg gccgcgaac accaaagga gtcactttc 
      atcagaacc aacagaccg gccactgct gtcatctac 
      cccaacaat cacgtattc caggtgggc aagtcgcac 
      gtggtgaag aagtcgaac aacgaccaa gtcctggtt 
      attggtggc ggagtgacc ctgcaggag gccatcggg 
      gccgccaac gaattggct aaagccggt gttggtgtc 
      cgtgttttg gatctgttc accatcaag ccaattgac 
      aaggaggga ataatcaaa aacgcgaaa gaatgcggt 
      gggcgtatt ctcgtcgtt gaagaccac tactacgag 
      gggggcatt ggcgaggct gtcctttcg gcggtcgct 
      caggagcgc aacatcgcc gtgaaacac gtggcagtg 
      cccaaagtg ccccgctcc gggagcccc accgccctt 
      ttggactac tacggcctc aacagcaaa cacattgtc 
      aattacgtg caagaagca atgaagttg taattttat 
      catgtttac taatggagc ggtgtaaca ttccatttt 
      aataaaaaa attctaagt ta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY