Status
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Gene information
General information
TC004776 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: 6837985..6843349
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
    TC004776
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
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      Status: {{ goTerm.status }}
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      Quotation: {{ goTerm.quotation }}
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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
    {{ goGene }}
    The Tribolium gene the GO term is assigned to.
    GO ID *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00764

    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)

    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 3
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    Fertility
    egg production: number <50% of expected -
    ovary without detectable defects - Number of animals showing the phenotype: 4
    iBeetle screen iB_00764

    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: % (includes death as pupa, adult)

    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
    • >TC004776 RA
      MDTRKRGLR SAPPKGPEY ATKRDVGGR RSLPPCPKV 
      NRRMNRMSL FEEQKSCAK PVFFNHQIS LSPLYDPAK 
      DLCYFDQIY TKESVIGEG SFGVVFKVK SEQDDKFYA 
      VKEFKSCHA LHYGYAEVE NYEKIGEHD NCVKFIMAW 
      EELKIVHIQ MEYCDLSLA QYAALTHKI GESQLWEIL 
      YDMLKALDY LHRKNLIHL DVKPGNIMM SQGFYKLAD 
      FGLLVDLNR HDGKKISTI SDGDAKYLA CEVLDGIYT 
      YSCDIFGLG ISLLELATN IELPEFGPL WHQIRKQYL 
      PAPFYDGVT KSFAETIEK MMAKIHWQR PQASKLLKS 
      THLKKIQKQ DSKQPRNIY YEELPREPC IIINKYNNN 
      NNVETPPKT HEKSHNLSS CRDLHGSIS PNRRLCREK 
      LAF
    CDS sequence
    • >TC004776 RA
      atggatacg cgtaaaagg ggattgagg tctgcgccc 
      cccaagggg cccgagtac gcaacgaag agggatgtc 
      ggaggacgt aggagtttg cccccgtgt cctaaagtt 
      aacaggcgg atgaaccgc atgagctta tttgaggag 
      cagaaaagt tgtgccaag ccagtcttt ttcaaccac 
      caaataagt ttgagcccg ttgtacgac cccgccaag 
      gacttgtgc tacttcgac caaatttac accaaggag 
      tctgtaatt ggggaaggt tcgtttggg gttgttttc 
      aaagtgaag tcggaacaa gacgataag ttttacgcc 
      gtgaaggag ttcaagtcg tgtcatgcc ttgcactac 
      ggttacgcc gaagtggag aattacgag aaaattggg 
      gagcacgac aattgtgtg aaatttatt atggcttgg 
      gaagagctt aaaatcgtc cacattcag atggaatac 
      tgcgatttg agtttagcc caatatgcg gctctcaca 
      cacaaaatt ggagagtcg caactctgg gaaatactc 
      tacgacatg ctgaaagcg cttgactat ttgcaccgg 
      aaaaacttg attcatctt gatgtcaaa ccagggaac 
      atcatgatg agtcagggg ttctacaaa ctggccgac 
      tttggcctc cttgttgat ttaaataga catgacggt 
      aagaaaatt tcaacaatt tctgacgga gacgccaaa 
      tacctggcc tgtgaggtc ctggacggc atctacacg 
      tattcttgc gacattttc ggcttggga ataagtctt 
      ttggagctg gcaacaaac atagagttg cccgaattc 
      gggcctttg tggcaccag atccgcaag caatacctc 
      cctgcgcct ttctacgat ggggtcact aagtcattc 
      gccgaaacc attgaaaaa atgatggcg aaaatccac 
      tggcagcgg ccacaagcg tcgaaactt ctcaagagt 
      acgcatttg aaaaaaatc caaaaacag gattcaaag 
      caacctagg aatatttat tatgaagag ttaccgcgt 
      gaaccttgc attattatc aacaaatac aataataat 
      aataatgtt gagacaccg ccgaagaca cacgagaaa 
      agtcacaac ttgagttcg tgtcgggac ttacatggg 
      agtatttca ccaaatcgt cgattatgt agggaaaag 
      ctggccttt taa
    mRNA sequence
    • >TC004776 RA
      aatgggcct catcttaat taaatttaa aaaactttc 
      ccaagaaaa ttgttcgcc attgggacg tgttgcatg 
      ttggcattt atgtgattg ttattagag tttgttgta 
      attattggt gataaatga aagacccgg atagcgtgt 
      attgaagtg ttggtgttg gtgttggtg tgttcagtg 
      acaacatgg atacgcgta aaaggggat tgaggtctg 
      cgcccccca aggggcccg agtacgcaa cgaagaggg 
      atgtcggag gacgtagga gtttgcccc cgtgtccta 
      aagttaaca ggcggatga accgcatga gcttatttg 
      aggagcaga aaagttgtg ccaagccag tctttttca 
      accaccaaa taagtttga gcccgttgt acgaccccg 
      ccaaggact tgtgctact tcgaccaaa tttacacca 
      aggagtctg taattgggg aaggttcgt ttggggttg 
      ttttcaaag tgaagtcgg aacaagacg ataagtttt 
      acgccgtga aggagttca agtcgtgtc atgccttgc 
      actacggtt acgccgaag tggagaatt acgagaaaa 
      ttggggagc acgacaatt gtgtgaaat ttattatgg 
      cttgggaag agcttaaaa tcgtccaca ttcagatgg 
      aatactgcg atttgagtt tagcccaat atgcggctc 
      tcacacaca aaattggag agtcgcaac tctgggaaa 
      tactctacg acatgctga aagcgcttg actatttgc 
      accggaaaa acttgattc atcttgatg tcaaaccag 
      ggaacatca tgatgagtc aggggttct acaaactgg 
      ccgactttg gcctccttg ttgatttaa atagacatg 
      acggtaaga aaatttcaa caatttctg acggagacg 
      ccaaatacc tggcctgtg aggtcctgg acggcatct 
      acacgtatt cttgcgaca ttttcggct tgggaataa 
      gtcttttgg agctggcaa caaacatag agttgcccg 
      aattcgggc ctttgtggc accagatcc gcaagcaat 
      acctccctg cgcctttct acgatgggg tcactaagt 
      cattcgccg aaaccattg aaaaaatga tggcgaaaa 
      tccactggc agcggccac aagcgtcga aacttctca 
      agagtacgc atttgaaaa aaatccaaa aacaggatt 
      caaagcaac ctaggaata tttattatg aagagttac 
      cgcgtgaac cttgcatta ttatcaaca aatacaata 
      ataataata atgttgaga caccgccga agacacacg 
      agaaaagtc acaacttga gttcgtgtc gggacttac 
      atgggagta tttcaccaa atcgtcgat tatgtaggg 
      aaaagctgg ccttttaaa aagatttaa taatcatta 
      agcagttgt gatatttca atagtactt aagaatagc 
      gggccaaaa gactgagga tactgttca aaggttcaa 
      gtattattg tttggcgtt tagtttcat tgtgcgttt 
      ttcggcgat tgatttttg gcaactttc ttatcaggt 
      agtgttgaa caatgtatt gtgcgttaa tttgttctt 
      tacaaaagt ttcttataa aaattatgc aatacttat 
      gtgatgtag ttaactgtt gtgattggg acttaatgg 
      atgatgtaa ttaaaaata attgtttac ttaacgttc 
      ttcctaaca ccattaagt cttgttatt atagatttg 
      aatgaatag tttttgcaa ttttattgt aatgtttca 
      taaaaagcg ccacttgtt ggcgtttgt aatttgtga 
      ttataattc tattcatgt ttctgaatt gttacattt 
      taagagagt ttattaagt ttttgcttc aggggttat 
      tactcgtta cacagtact ttgtttcca gtttaataa 
      aacgaaata ataatcata aatgtattt gactggcca 
      aactacaac aaagcaata acaattaaa ttattacaa 
      tcata

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY