Status
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Gene information
General information
TC013967 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_007420.3: 3281585..3283350
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
      TC013967
      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
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      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_09981

      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: 20.0% (includes death as pupa, adult)

      eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
      Days post injection


      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: < 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
      • >TC013967 RA
        MRRLLIAAC LIATICAYH IQKQDFDVV IDKVEYSSK 
        VPLKYNFRR GALKPTEEV LLELSKTLD KTKSGTEAI 
        INDYADKIF ANLHDLMIH GFDPIEMPD QHSGFNYTL 
        IITYHGELD LTHGWLSDI STIHRGGDV VVTYSSNTK 
        YLEVTVPIA FDDMQFTYD YSAKIMGLG PTGGIEGKI 
        AKLTCEVKI GFDVEAIQA SLDEFYITN SGHITFHFN 
        GNVLVDWLL NLLTDVTTI LLKEVILLV VEGVVRGGL 
        TSAVDAIND AINGFLNPT TPIPDTTPA LMYFN
      CDS sequence
      • >TC013967 RA
        atgcgtcga ttgttgatc gctgcgtgt cttattgcc 
        acgatttgt gcttaccac atccagaaa caagacttt 
        gatgtggtt atagacaaa gtggagtat tcgtctaaa 
        gtgcccctc aagtacaac tttaggcgc ggagcgctc 
        aagcccacc gaggaagtg ttgctcgaa ttgtcgaaa 
        acattggac aagacgaaa agtggtacc gaagctatt 
        atcaatgac tacgctgac aagattttt gcaaatttg 
        cacgacttg atgatccat gggttcgac cccatcgaa 
        atgcctgac caacactcg gggttcaat tatactctg 
        atcattacg taccatggt gagttggac ctgacccat 
        ggatggttg agcgatata agtaccatc catcgcggt 
        ggcgatgtc gtggtcact tacagttca aataccaaa 
        tatttggaa gttacggtc cccatcgct tttgacgac 
        atgcagttc acttatgac tacagcgca aaaatcatg 
        ggtttggga cccacggga ggaatcgaa ggaaagatc 
        gctaaattg acttgcgaa gtcaaaatt gggtttgat 
        gttgaagcc atccaagcc agtttggac gaattctat 
        atcacaaat tctggacat atcactttc cattttaat 
        ggaaacgtt ctcgttgac tggctcctc aacttgttg 
        accgatgtc accactatt cttttgaaa gaagtcatt 
        ttgcttgtg gtcgaaggt gtcgttcga ggaggcttg 
        acttcggcc gttgatgcc ataaacgac gctattaat 
        gggtttttg aacccaacg acgcccatc cccgacaca 
        acaccagcc cttatgtac tttaattag
      mRNA sequence
      • >TC013967 RA
        ttcgataac agaaggacc tataaaaga attaagtgc 
        ccacctctc aaagcgcag ttaattcga ttttgtgaa 
        actaaagcc tgaaaatgc gtcgattgt tgatcgctg 
        cgtgtctta ttgccacga tttgtgctt accacatcc 
        agaaacaag actttgatg tggttatag acaaagtgg 
        agtattcgt ctaaagtgc ccctcaagt acaacttta 
        ggcgcggag cgctcaagc ccaccgagg aagtgttgc 
        tcgaattgt cgaaaacat tggacaaga cgaaaagtg 
        gtaccgaag ctattatca atgactacg ctgacaaga 
        tttttgcaa atttgcacg acttgatga tccatgggt 
        tcgacccca tcgaaatgc ctgaccaac actcggggt 
        tcaattata ctctgatca ttacgtacc atggtgagt 
        tggacctga cccatggat ggttgagcg atataagta 
        ccatccatc gcggtggcg atgtcgtgg tcacttaca 
        gttcaaata ccaaatatt tggaagtta cggtcccca 
        tcgcttttg acgacatgc agttcactt atgactaca 
        gcgcaaaaa tcatgggtt tgggaccca cgggaggaa 
        tcgaaggaa agatcgcta aattgactt gcgaagtca 
        aaattgggt ttgatgttg aagccatcc aagccagtt 
        tggacgaat tctatatca caaattctg gacatatca 
        ctttccatt ttaatggaa acgttctcg ttgactggc 
        tcctcaact tgttgaccg atgtcacca ctattcttt 
        tgaaagaag tcattttgc ttgtggtcg aaggtgtcg 
        ttcgaggag gcttgactt cggccgttg atgccataa 
        acgacgcta ttaatgggt ttttgaacc caacgacgc 
        ccatccccg acacaacac cagccctta tgtacttta 
        attagatgt aactgactt aactttacc gcacaataa 
        atttctgtt tatattttg tgaatttat gcattttta 
        aaaattaag tatctacgg tgttcttcg gctacttgg 
        tttgaacaa acttgttta acattgtgc ttttaatta 
        aacgacaag tgaggcggt gtaagtgta tgttttgcg 
        atttttcga gaaacaggt ttaagcgcg tattgtgta 
        actttatta acgggctgt taaatctag gactggttt 
        ataaaaagt ttcgttaaa atttaattc gttattaaa 
        agttaacaa cgcaaatgg gccaaacaa attgcttca 
        gtttggtca catgatcag ttaatcacg catttaatt 
        gcggattaa attaatgac gctcaataa accggtccc 
        taggaattt tattggtta ttgctatag caataacga 
        ttaaaggca tttaaattt taataggtt tattatttt 
        gtactttaa agttcaagt tttgttttg tagctttat 
        agtacttat attttagtg ttttttttt taaagaatt 
        cattacttt tgagttact aactatagg tcttaaagc 
        aaggaaatg ttataactt acattcctt tgcctccaa 
        atataaaag ttaaacctt gtttttcat taacacttg 
        tttaggttc actactgca atttcaaat atggacgca 
        gacaatttg ttctcttga gggttgcta ataataaaa 
        ttttttaca tact
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY