Status
Please wait ...
Gene information
General information
TC008506 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_007419.2: 11690379..11694120
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
    TC008506
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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_03706

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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%

    Comment: > 100 empty eggs on slide
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment: only 5 eggs with remnants on the slide
    appendages partially remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen partially # of remaining segments remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    larva everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment: only 4 larvae inside-outed on the slide
    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: 70.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 80.0% (includes death as larva, prepupa, pupa, adult)

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


    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection



    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008506 RA
      MYFAVFFIT IGLSSFGVN ADPTCPKQD GKDSVYFPH 
      EDCTKFWQC SNGTPYLFD CPDNLHFNP KLNVCDWPN 
      AAGCKGSGE DSDSSSSSS SSSSSESQE SGDNSQGKD 
      DNNSSSSSS SSSSSSSSE EGSSPECPS VDGEDPVYF 
      PHEDCTKFW QCSNGVPYL FNCSANLHF NPKLNVCDW 
      PDQAGCESK EDSSSGSES KESDDKDDS SSSSSSSSS 
      SESQESGDN SQGKDDNNS SSSSSSSSS SSSSEEGSS 
      PECPSVDGE DPVYFPHED CTKFWQCSN GVPYLFNCS 
      ANLHFNPKL NVCDWPDQA GCESKEDSS SGSESKESD 
      DKDDSSSSS SSSSSSESQ ESGDNSQGK DDNNSSSSS 
      SSSSSSSSE EGSSPECPS VDGEDPVYF PHEDCTKFW 
      QCSNGVPYL FNCSANLHF NPKLNVCDW PDQAGCESK 
      EDSSSSSSS SSESKESGN NSESKDDNS SSSSSSSSN 
      SSSSEEGPE CPSVDGENP VYFPHEDCT KFWQCSNGV 
      PYLFNCSAN LHFNPKLNV CDWPDQAGC ESKEDSSSS 
      SSSSSESKE SGDNSESKD DNSSSSSSS SSSSSSSEE 
      GPECPSVDG ENPVYFPHE DCTKFWQCS NGVPYLFNC 
      SANLHFNPK LNVCDWPDQ AGCESKEDS SSSSSSSSS 
      ESGDNSQGK DDDKDDSGN SSSSSSDSS SSSSSSESS 
      EEGPECPSV DGETPVYIP HEDCTKFWQ CSNGTPYLF 
      DCPDNLHFN PKLNVCDWP NAAGCKGNK
    CDS sequence
    • >TC008506 RA
      atgtacttt gcagtattt ttcataaca attggctta 
      agctccttt ggagtaaac gcagatcca acttgtccg 
      aaacaagat ggaaaagat tccgtctac tttccacat 
      gaagactgc accaaattt tggcagtgt tcaaatggc 
      actccgtat ctttttgac tgccctgat aatttgcat 
      tttaatccg aaactgaac gtttgtgat tggccaaat 
      gctgccgga tgcaaagga agcggtgaa gatagtgac 
      agcagtagc agtagcagc agcagcagt agtagcgaa 
      agtcaagaa tccggagat aactcacaa ggaaaagac 
      gataataac agtagcagt agcagtagt agcagcagc 
      agcagcagc agcagtgaa gaaggcagc agtcctgaa 
      tgtccctca gtagatgga gaagatcct gtctacttc 
      ccacatgaa gattgtaca aaattttgg caatgttct 
      aatggtgtt ccctacttg ttcaactgc tcagctaat 
      ttgcatttc aatcctaaa ttaaacgtt tgcgattgg 
      cccgatcaa gcaggttgt gaaagcaaa gaagatagt 
      agcagtggc agcgaaagt aaagaatct gatgataaa 
      gatgacagc agtagcagt agcagcagc agcagtagt 
      agcgaaagt caagaatcc ggagataac tcacaagga 
      aaagacgat aataacagt agcagtagc agtagtagt 
      agcagcagc agcagcagc agtgaagaa ggcagcagt 
      cctgaatgt ccctcagta gatggagaa gatcctgtc 
      tacttccca catgaagat tgtacaaaa ttttggcaa 
      tgttctaat ggtgttccc tacttgttc aactgctca 
      gctaatttg catttcaat cctaaatta aacgtttgc 
      gattggccc gatcaagca ggttgtgaa agcaaagaa 
      gatagtagc agtggcagc gaaagtaaa gaatctgat 
      gataaagat gacagcagt agcagtagc agcagcagc 
      agtagtagc gaaagtcaa gaatccgga gataactca 
      caaggaaaa gacgataat aacagtagc agtagcagt 
      agtagcagt agcagcagc agcagtgaa gaaggcagc 
      agtcctgaa tgtccctca gtagatgga gaagatcct 
      gtctacttc ccacatgaa gattgtaca aaattttgg 
      caatgttct aatggtgtt ccctacttg ttcaactgc 
      tcagctaat ttgcatttc aatcccaaa ttaaacgtt 
      tgcgattgg cccgatcaa gcaggttgt gaaagcaaa 
      gaagatagt agcagcagt agtagcagc agcagcgaa 
      agcaaagaa tctggcaat aactccgaa agcaaagac 
      gataacagt agcagcagc agtagcagc agcagcaac 
      agcagcagc agtgaagaa ggtcctgaa tgtccttca 
      gtagatgga gaaaatcct gtctacttc ccacacgaa 
      gattgtacc aaattttgg caatgttct aatggtgtt 
      ccctacttg ttcaactgt tcagctaat ttgcatttc 
      aatcccaaa ttaaacgtt tgcgattgg cccgatcaa 
      gcaggttgt gaaagcaaa gaagatagt agcagcagt 
      agtagcagc agcagcgaa agcaaagaa tctggcgat 
      aactccgaa agcaaagac gataacagt agcagcagc 
      agtagcagc agcagcagc agcagcagc agtgaagaa 
      ggtcctgaa tgtccttca gtagatgga gaaaatcct 
      gtctacttc ccacacgaa gattgtacc aaattttgg 
      caatgttct aatggtgtt ccctacttg ttcaactgc 
      tcagctaat ttgcatttc aatcctaaa ttaaacgtt 
      tgcgattgg cccgatcaa gcaggttgt gaaagcaaa 
      gaagatagc agcagcagc agtagtagt agcagcagt 
      gaaagcggt gacaattcc caaggaaaa gacgacgat 
      aaagatgat agtggtaac agcagcagc agcagtagt 
      gacagtagc agtagcagc agcagcagc gaaagtagt 
      gaagaaggt cctgagtgt ccctcagtg gacggtgaa 
      actccagtt tatatacca catgaagac tgcaccaaa 
      ttctggcaa tgttcaaat ggtactccg tatcttttt 
      gactgtcca gacaatttg cactttaat cccaaattg 
      aatgtttgt gattggcca aacgccgca ggatgtaaa 
      ggaaataaa taa
    mRNA sequence
    • >TC008506 RA
      tgctaactc cactcaaaa tgtactttg cagtatttt 
      tcataacaa ttggcttaa gctcctttg gagtaaacg 
      cagatccaa cttgtccga aacaagatg gaaaagatt 
      ccgtctact ttccacatg aagactgca ccaaatttt 
      ggcagtgtt caaatggca ctccgtatc tttttgact 
      gccctgata atttgcatt ttaatccga aactgaacg 
      tttgtgatt ggccaaatg ctgccggat gcaaaggaa 
      gcggtgaag atagtgaca gcagtagca gtagcagca 
      gcagcagta gtagcgaaa gtcaagaat ccggagata 
      actcacaag gaaaagacg ataataaca gtagcagta 
      gcagtagta gcagcagca gcagcagca gcagtgaag 
      aaggcagca gtcctgaat gtccctcag tagatggag 
      aagatcctg tctacttcc cacatgaag attgtacaa 
      aattttggc aatgttcta atggtgttc cctacttgt 
      tcaactgct cagctaatt tgcatttca atcctaaat 
      taaacgttt gcgattggc ccgatcaag caggttgtg 
      aaagcaaag aagatagta gcagtggca gcgaaagta 
      aagaatctg atgataaag atgacagca gtagcagta 
      gcagcagca gcagtagta gcgaaagtc aagaatccg 
      gagataact cacaaggaa aagacgata ataacagta 
      gcagtagca gtagtagta gcagcagca gcagcagca 
      gtgaagaag gcagcagtc ctgaatgtc cctcagtag 
      atggagaag atcctgtct acttcccac atgaagatt 
      gtacaaaat tttggcaat gttctaatg gtgttccct 
      acttgttca actgctcag ctaatttgc atttcaatc 
      ctaaattaa acgtttgcg attggcccg atcaagcag 
      gttgtgaaa gcaaagaag atagtagca gtggcagcg 
      aaagtaaag aatctgatg ataaagatg acagcagta 
      gcagtagca gcagcagca gtagtagcg aaagtcaag 
      aatccggag ataactcac aaggaaaag acgataata 
      acagtagca gtagcagta gtagcagta gcagcagca 
      gcagtgaag aaggcagca gtcctgaat gtccctcag 
      tagatggag aagatcctg tctacttcc cacatgaag 
      attgtacaa aattttggc aatgttcta atggtgttc 
      cctacttgt tcaactgct cagctaatt tgcatttca 
      atcccaaat taaacgttt gcgattggc ccgatcaag 
      caggttgtg aaagcaaag aagatagta gcagcagta 
      gtagcagca gcagcgaaa gcaaagaat ctggcaata 
      actccgaaa gcaaagacg ataacagta gcagcagca 
      gtagcagca gcagcaaca gcagcagca gtgaagaag 
      gtcctgaat gtccttcag tagatggag aaaatcctg 
      tctacttcc cacacgaag attgtacca aattttggc 
      aatgttcta atggtgttc cctacttgt tcaactgtt 
      cagctaatt tgcatttca atcccaaat taaacgttt 
      gcgattggc ccgatcaag caggttgtg aaagcaaag 
      aagatagta gcagcagta gtagcagca gcagcgaaa 
      gcaaagaat ctggcgata actccgaaa gcaaagacg 
      ataacagta gcagcagca gtagcagca gcagcagca 
      gcagcagca gtgaagaag gtcctgaat gtccttcag 
      tagatggag aaaatcctg tctacttcc cacacgaag 
      attgtacca aattttggc aatgttcta atggtgttc 
      cctacttgt tcaactgct cagctaatt tgcatttca 
      atcctaaat taaacgttt gcgattggc ccgatcaag 
      caggttgtg aaagcaaag aagatagca gcagcagca 
      gtagtagta gcagcagtg aaagcggtg acaattccc 
      aaggaaaag acgacgata aagatgata gtggtaaca 
      gcagcagca gcagtagtg acagtagca gtagcagca 
      gcagcagcg aaagtagtg aagaaggtc ctgagtgtc 
      cctcagtgg acggtgaaa ctccagttt atataccac 
      atgaagact gcaccaaat tctggcaat gttcaaatg 
      gtactccgt atctttttg actgtccag acaatttgc 
      actttaatc ccaaattga atgtttgtg attggccaa 
      acgccgcag gatgtaaag gaaataaat aaattattg 
      tgaatggag aataggttc atgaaaaaa taaatactt 
      ttgaatgtt

    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