Status
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Gene information
General information
TC002747 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_007418.3: 12619972..12621452
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
      TC002747
      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
      {{ goGene }}
      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
      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
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      * : mandatory fields
      For help on how to submit larger datasets or non experimental data please contact us.
      iBeetle screen iB_00433

      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: 10.0% (includes death as pupa, adult)

      adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
      Days post injection


      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: 10.0% (includes death as larva, prepupa, pupa)
      Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

      larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
      Days post injection


      remarks: later than schedule, hours 24
      Pupal morphology
      remarks: later than schedule, hours 24
      Adult morphology
      remarks: later than schedule, hours 24
      Fertility
      remarks: later than schedule, hours 24
      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC002747 RA
        MVSVFLEPE IFKVTPLAS KRLKCGGDA DCTNLNQSV 
        PQIQLILQI KHVKLSNEC LQYTDRYLE GKKHIKLVW 
        NFNKLQEEI VSSEVIEHL KVKLGCRAQ YGFDVNEDS 
        LEIIRENPV IFELYATNG AKSVLLSEA NLYLGDILD 
        LINRKETTR VLFYNGVID SVNSFAYLS LQYKFTCHK 
        KDVKNFKLT VSNIQRSQG DTQSKTFRQ IKGASLKKV 
        ESDDSLFRD LDNVLKTTS SDACRSLEK EINCVDYEP 
        NSLWLNACA LRNSTEEYK PEFFVTISS LHFLEGSLP 
        MIDTEVEQI YVEYSFLGL EGPEFETPF SVPKGKPNE 
        DLLFNFTKK FDIDVNANY CNCKKMIDL IVNKGVVTF 
        VVVSEQVER LDKPIQTCF ELGYSEVSL DEIANLEQN 
        EDTYQYEIL DYANSLDVI GYMSIKFEG ILAMKQMIL 
        TMMANKGYT YDSENMW
      CDS sequence
      • >TC002747 RA
        atggtgagc gttttcctc gaacctgaa attttcaaa 
        gtaactcct ctcgcttcg aaaagacta aaatgtggt 
        ggagatgcc gattgtact aatttaaac caatctgtc 
        ccccaaata caactaatt ctccaaatc aaacatgtc 
        aagttgtca aacgagtgt ctccaatac accgatcgt 
        tatctcgaa ggcaaaaaa catatcaaa ctggtctgg 
        aacttcaat aaattgcaa gaagaaatt gtttcttcg 
        gaagtgatc gaacactta aaagtcaaa ctgggatgt 
        agggctcag tatggtttt gatgtcaat gaggattcg 
        cttgagata attcgcgaa aacccggtc attttcgag 
        ctttatgcc accaatggt gccaaaagt gtgcttctg 
        agcgaagcc aatctctac cttggggac atcttagac 
        ctaatcaac agaaaagaa accacaaga gtgttgttc 
        tacaacggg gttattgat tctgtcaat agtttcgct 
        tatttgagt ttgcaatac aagtttact tgccacaaa 
        aaggacgtg aagaacttc aaactaacc gtttcaaac 
        atacaaagg tcgcaagga gacacccaa agcaaaact 
        ttccggcag attaaagga gccagtttg aaaaaagtc 
        gaatccgat gatagttta tttcgagac ttggacaat 
        gtcctaaaa accacaagt tcagacgct tgtagaagc 
        ttagagaaa gaaatcaat tgtgtagat tatgaaccc 
        aactctctt tggctaaat gcttgtgct ttgagaaac 
        agcaccgaa gagtacaaa ccggaattt ttcgtaacc 
        atctcaagt cttcatttt ttggaaggc agtcttcca 
        atgatagac accgaagtt gagcaaatt tacgtcgag 
        tatagtttt ctaggtctt gaaggtccc gaatttgaa 
        actccgttc agtgttccc aaaggcaaa ccaaacgag 
        gatttgctt tttaatttc actaaaaaa ttcgatatt 
        gacgtgaat gccaactat tgcaattgc aagaaaatg 
        attgatttg attgtaaat aagggtgtt gtgactttt 
        gtcgtggtc agtgagcag gttgagagg ctggataag 
        ccgatacag acgtgtttc gagcttgga tatagcgaa 
        gtttcgttg gacgagatc gcgaatttg gagcaaaat 
        gaagacact taccagtat gagatttta gattatgcc 
        aattcttta gacgtgatt ggttacatg tcgatcaag 
        tttgaggga attttggcg atgaagcaa atgattttg 
        acgatgatg gctaacaag ggttacacg tacgactcg 
        gaaaacatg tggtga
      mRNA sequence
      • >TC002747 RA
        cacgaaatt ttaacgaaa aatcaaaat ttttgtgaa 
        aatggtgag cgttttcct cgaacctga aattttcaa 
        agtaactcc tctcgcttc gaaaagact aaaatgtgg 
        tggagatgc cgattgtac taatttaaa ccaatctgt 
        cccccaaat acaactaat tctccaaat caaacatgt 
        caagttgtc aaacgagtg tctccaata caccgatcg 
        ttatctcga aggcaaaaa acatatcaa actggtctg 
        gaacttcaa taaattgca agaagaaat tgtttcttc 
        ggaagtgat cgaacactt aaaagtcaa actgggatg 
        tagggctca gtatggttt tgatgtcaa tgaggattc 
        gcttgagat aattcgcga aaacccggt cattttcga 
        gctttatgc caccaatgg tgccaaaag tgtgcttct 
        gagcgaagc caatctcta ccttgggga catcttaga 
        cctaatcaa cagaaaaga aaccacaag agtgttgtt 
        ctacaacgg ggttattga ttctgtcaa tagtttcgc 
        ttatttgag tttgcaata caagtttac ttgccacaa 
        aaaggacgt gaagaactt caaactaac cgtttcaaa 
        catacaaag gtcgcaagg agacaccca aagcaaaac 
        tttccggca gattaaagg agccagttt gaaaaaagt 
        cgaatccga tgatagttt atttcgaga cttggacaa 
        tgtcctaaa aaccacaag ttcagacgc ttgtagaag 
        cttagagaa agaaatcaa ttgtgtaga ttatgaacc 
        caactctct ttggctaaa tgcttgtgc tttgagaaa 
        cagcaccga agagtacaa accggaatt tttcgtaac 
        catctcaag tcttcattt tttggaagg cagtcttcc 
        aatgataga caccgaagt tgagcaaat ttacgtcga 
        gtatagttt tctaggtct tgaaggtcc cgaatttga 
        aactccgtt cagtgttcc caaaggcaa accaaacga 
        ggatttgct ttttaattt cactaaaaa attcgatat 
        tgacgtgaa tgccaacta ttgcaattg caagaaaat 
        gattgattt gattgtaaa taagggtgt tgtgacttt 
        tgtcgtggt cagtgagca ggttgagag gctggataa 
        gccgataca gacgtgttt cgagcttgg atatagcga 
        agtttcgtt ggacgagat cgcgaattt ggagcaaaa 
        tgaagacac ttaccagta tgagatttt agattatgc 
        caattcttt agacgtgat tggttacat gtcgatcaa 
        gtttgaggg aattttggc gatgaagca aatgatttt 
        gacgatgat ggctaacaa gggttacac gtacgactc 
        ggaaaacat gtggtgatg ttcagtatg ttttaaatt 
        aaaaaaatt aattgtgtg tgttttgtg atggttgat 
        attgaggta atttcgtga gacaataaa aagaaataa 
        aaact
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY