Status
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Gene information
General information
TC004455 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_007417.3: 4791204..4793151
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
    TC004455
    Gene ontology

    GO terms for Tribolium

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      Status: {{ goTerm.status }}
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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_10530

    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
    mature egg not present - Number of animals showing the phenotype: 4

    previtellogenic egg chamber early shape irregular - Number of animals showing the phenotype: 4

    vitellogenic egg chamber late degenerated - Number of animals showing the phenotype: 4

    egg chamber stage sequence irregular - Number of animals showing the phenotype: 4

    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)

    iBeetle screen iB_10540

    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: < 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: % (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
    • >TC004455 RA
      MGAEISYNE LKHLSEECS IDQLTCEEE DTKHFPTKL 
      PENINSSTK LPGTFITNE SNHFAINKF IQEMEKQKN 
      PSQSCIGNK RSYYPRLEF PVSPYPPDL KPGSDFVAS 
      ILIYRPVEF KFFHAKNAS EKLRFSHEI VVLGRNTLT 
      ELRDTIMCS SDFGLCKEV ENTSADLKP LANARNIYP 
      SGFIFIDNV FYNDFRDPN SIDYSFPII EWAKEKQIK 
      NLSSENMEN VRIESLTPR FGYPYLYMH QGDCEHLFI 
      FADARLLNS SDCLHSQFY PHVLKINRN INRMCFMCS 
      VSFAKWIVV DSDRLPQHK VFMCTDCCN SYNYVNGEK 
      LGSFKLYPY YEKHVVV
    CDS sequence
    • >TC004455 RA
      atgggggcg gaaatctcc tacaatgaa ttaaaacac 
      ttgtctgaa gagtgcagt attgatcag ttaacttgt 
      gaggaagag gacactaaa cattttcca actaaatta 
      ccagaaaat atcaattcc agcacaaaa ctaccgggc 
      acgttcatt acaaatgaa agtaaccac ttcgccatc 
      aataaattt atacaagaa atggaaaaa caaaaaaat 
      ccgtcacag tcatgtata ggcaataaa cgaagttac 
      tatccaaga ttagagttt cccgtgtcg ccttatccc 
      ccagacctc aagccaggt tccgatttt gtcgcttca 
      atattaata tacagacca gtggaattc aaatttttc 
      catgctaaa aacgcatct gaaaaatta cgattcagt 
      cacgaaata gtcgttcta ggtcgaaac actttaact 
      gagttgagg gacacaatc atgtgctca tcagatttt 
      ggcctttgc aaagaagtt gagaacaca tcagctgat 
      ctgaaacca ctggctaat gcgagaaac atatacccc 
      tctggtttt attttcatt gacaacgtt ttttacaac 
      gactttcgc gaccctaac tccattgat tattcattc 
      ccgattatt gagtgggcc aaggagaag caaatcaaa 
      aacctctca agcgaaaat atggaaaat gttcgcatc 
      gaaagtctc acacccaga tttgggtac ccgtacttg 
      tacatgcat caaggagac tgcgaacat ttgtttatt 
      tttgccgac gcgaggctt ctgaattct agcgactgt 
      ctgcattcg cagttttat ccgcacgtt ttgaaaatc 
      aatcgcaac ataaacaga atgtgtttc atgtgctcg 
      gtttcgttc gccaagtgg atagttgtt gacagtgac 
      cgactgccc caacataaa gttttcatg tgcaccgac 
      tgttgcaat tcttataat tacgtaaac ggggagaag 
      ttaggtagc tttaaattg tacccatac tatgaaaag 
      cacgttgtt gtatga
    mRNA sequence
    • >TC004455 RA
      tttcctctg aaacgctac tttgaggaa tttgccaat 
      tcctcacgt ggggttcca agcaacaaa cctgatgaa 
      agcaccaat gagactgag tatttatta gcaattaag 
      gacttgatg ggggcggaa atctcctac aatgaatta 
      aaacacttg tctgaagag tgcagtatt gatcagtta 
      acttgtgag gaagaggac actaaacat tttccaact 
      aaattacca gaaaatatc aattccagc acaaaacta 
      ccgggcacg ttcattaca aatgaaagt aaccacttc 
      gccatcaat aaatttata caagaaatg gaaaaacaa 
      aaaaatccg tcacagtca tgtataggc aataaacga 
      agttactat ccaagatta gagtttccc gtgtcgcct 
      tatccccca gacctcaag ccaggttcc gattttgtc 
      gcttcaata ttaatatac agaccagtg gaattcaaa 
      tttttccat gctaaaaac gcatctgaa aaattacga 
      ttcagtcac gaaatagtc gttctaggt cgaaacact 
      ttaactgag ttgagggac acaatcatg tgctcatca 
      gattttggc ctttgcaaa gaagttgag aacacatca 
      gctgatctg aaaccactg gctaatgcg agaaacata 
      tacccctct ggttttatt ttcattgac aacgttttt 
      tacaacgac tttcgcgac cctaactcc attgattat 
      tcattcccg attattgag tgggccaag gagaagcaa 
      atcaaaaac ctctcaagc gaaaatatg gaaaatgtt 
      cgcatcgaa agtctcaca cccagattt gggtacccg 
      tacttgtac atgcatcaa ggagactgc gaacatttg 
      tttattttt gccgacgcg aggcttctg aattctagc 
      gactgtctg cattcgcag ttttatccg cacgttttg 
      aaaatcaat cgcaacata aacagaatg tgtttcatg 
      tgctcggtt tcgttcgcc aagtggata gttgttgac 
      agtgaccga ctgccccaa cataaagtt ttcatgtgc 
      accgactgt tgcaattct tataattac gtaaacggg 
      gagaagtta ggtagcttt aaattgtac ccatactat 
      gaaaagcac gttgttgta tgaataaat gtttgaatt 
      tcgcgccaa atttccaag atggcggtc tgacctgtt 
      ccgacacgg agtagttct gcaaaaggt ttcccactt 
      ttccaagtt atttgagga gtgattgtg accgaactt 
      gcgtagaat taaacaatt tgtgttact tgtgtggcg 
      ttcaagtca ccaatccgt gtttttccc cggttgttc 
      aaagaacag aactgttcc gggggcaag tggagtaaa 
      gaacgtacc tgcttttgt tttcaaaaa agtgcggca 
      aaatgagtt tcctccaaa tagtttacg acgatgagg 
      cttctgata tcctatcag aggagaaac tccaagaca 
      cgtcctccc tattgttgg agggtgtta atggtacgt 
      tttttttcc aaaaacttt gcgtttcat taattcacc 
      attaacaga catcaccga tgataatac tgggcaaaa 
      tgtgctcga taatgtggt acaaattga ggaaacgcc 
      aaacataat ggtcgaatg gaccaggaa agagacaaa 
      ttttctgct gaaaaagta caataaata cattgtttg 
      taccggccc taataaaaa attcagaac gaaaagaca 
      actgtggca acgcgtgtc tcaagatat taaaaatga 
      attaaagaa aaaccgttc aagtgctca gtgtgagaa 
      tagatat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY