Status
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Gene information
General information
TC013544 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: 8242392..8245233
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
      TC013544
      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
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      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_05448

      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)

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


      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%
      affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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 - 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: 0.0% (includes death as larva, prepupa, pupa)
      Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC013544 RA
        MSKEKSPVT ISETVEIKN EHKEPEDTK DKKHKKFTC 
        KQKVALVML ATVDFMSFC SMSIMAPFY PQEAATKGM 
        SESMAGFVF GFYALVVFL SSPVFGKIL PKIGLKCLF 
        TGGVLISGI CSLVFGTLH IIDNYALFT TFSFLIRGL 
        EALGASAYS TASYVIIVN IFPDNAGAV RGLLETFVG 
        LGMSVGPAL GGLLFAIGG FGLPFYVIG LIIILIAPL 
        NVYLLPSSE RCAVETKSG SFTKLLRLT PVIVTCFII 
        TVIAMTWSF LDPTLEPHL RKFKLSPGN IGLIFLLLS 
        AMYGIFSPA WGWVTDRLD NYWWLMTCG LFCNSISLL 
        LLGPSPILS FLEDSIWLN IVALSTLGV SVAMALMPT 
        YQAILDSAL VGGFEDNLG THSVIAGLW SCVYSLGEV 
        LGPIIGGTL LQNYGFSLT STVFSLLNL IMAILGTMY 
        FLLRRKSNK DRNIFIDQA GFQKYRQKN AEIILGTIL 
        ENGENGKWI AKLK
      CDS sequence
      • >TC013544 RA
        atgagtaaa gaaaagagc cctgttacg atttctgaa 
        accgttgag atcaaaaat gaacacaaa gagccagaa 
        gacactaaa gataagaaa cacaagaaa ttcacctgc 
        aaacaaaag gtggcttta gtaatgcta gcaacagtg 
        gattttatg agtttttgc tcgatgtca attatggcg 
        cctttctac cctcaagaa gcagcgact aaaggcatg 
        tcggaatca atggcaggg tttgttttc gggttttac 
        gcacttgtt gtatttttg tcttcacca gtatttggt 
        aaaatttta cctaaaata gggttgaaa tgcctgttt 
        accggagga gtattaatt tcaggaatt tgtagttta 
        gtttttgga acattacac atcatagat aattatgca 
        ctatttacg acgttttcg tttctgata agaggtttg 
        gaggctttg ggagctagc gcttactcc actgctagt 
        tacgttatt attgtaaat atttttccc gacaatgct 
        ggagccgta aggggcctt ttggagaca tttgtcggc 
        ttgggaatg agtgtgggc ccggccctt ggaggccta 
        ctttttgcg atcggaggt ttcggtcta ccattctac 
        gtaattggt ttaattata atcctgata gcaccactg 
        aatgtttat ttgttacca tcgtcagaa agatgtgct 
        gtggagaca aagagcggc tcctttacc aaactcttg 
        agactaact cctgtgata gtgacatgt tttattatt 
        acggtcatt gctatgact tggagtttc ctggacccg 
        actttagaa ccgcatttg cgaaagttc aagttaagt 
        ccaggaaat attgggctt attttcctg cttttgtcg 
        gcaatgtat gggattttc agccctgca tgggggtgg 
        gtgactgac agactcgat aattattgg tggctaatg 
        acttgtggt ctcttttgt aactctatc agtttacta 
        cttttgggc ccgtcgccg attttgtca tttcttgaa 
        gattcaata tggctcaac attgtggct ttatcaact 
        ttgggggtg tcagtggca atggctttg atgcccacg 
        tatcaagca atcttggac agcgccctt gttggaggt 
        tttgaagac aatttgggg actcacagc gtaattgcc 
        ggcctgtgg tcctgtgta tattccctg ggtgaagtt 
        ctcggacct ataataggg ggaactctt ctccaaaat 
        tacggattt tcgctaaca tcgacagtt ttttcgttg 
        ctgaattta ataatggcg attttggga acgatgtat 
        tttctactc aggcggaag tctaataag gatcgaaac 
        atatttatc gatcaagct ggtttccag aaatataga 
        caaaaaaat gctgaaatt attttaggg acaatactg 
        gaaaatggt gaaaatgga aaatggatt gccaagctg 
        aaatag
      mRNA sequence
      • >TC013544 RA
        ttagtgctg agcaaagag ttgcggagg tctcgcact 
        cttactgat tcattcaaa gcttcactt tttctcgac 
        tcgagtaaa gcagagtgt gttcctaca atgatagta 
        aatggaaat agaacagtg aagtttatg agttatgac 
        tgtgaaaat tacaagtta atacaagtg caaaagact 
        gttttttca ttggattta agtgtctct agcaaaatt 
        taaaatgag taaagaaaa gagccctgt tacgatttc 
        tgaaaccgt tgagatcaa aaatgaaca caaagagcc 
        agaagacac taaagataa gaaacacaa gaaattcac 
        ctgcaaaca aaaggtggc tttagtaat gctagcaac 
        agtggattt tatgagttt ttgctcgat gtcaattat 
        ggcgccttt ctaccctca agaagcagc gactaaagg 
        catgtcgga atcaatggc agggtttgt tttcgggtt 
        ttacgcact tgttgtatt tttgtcttc accagtatt 
        tggtaaaat tttacctaa aatagggtt gaaatgcct 
        gtttaccgg aggagtatt aatttcagg aatttgtag 
        tttagtttt tggaacatt acacatcat agataatta 
        tgcactatt tacgacgtt ttcgtttct gataagagg 
        tttggaggc tttgggagc tagcgctta ctccactgc 
        tagttacgt tattattgt aaatatttt tcccgacaa 
        tgctggagc cgtaagggg ccttttgga gacatttgt 
        cggcttggg aatgagtgt gggcccggc ccttggagg 
        cctactttt tgcgatcgg aggtttcgg tctaccatt 
        ctacgtaat tggtttaat tataatcct gatagcacc 
        actgaatgt ttatttgtt accatcgtc agaaagatg 
        tgctgtgga gacaaagag cggctcctt taccaaact 
        cttgagact aactcctgt gatagtgac atgttttat 
        tattacggt cattgctat gacttggag tttcctgga 
        cccgacttt agaaccgca tttgcgaaa gttcaagtt 
        aagtccagg aaatattgg gcttatttt cctgctttt 
        gtcggcaat gtatgggat tttcagccc tgcatgggg 
        gtgggtgac tgacagact cgataatta ttggtggct 
        aatgacttg tggtctctt ttgtaactc tatcagttt 
        actactttt gggcccgtc gccgatttt gtcatttct 
        tgaagattc aatatggct caacattgt ggctttatc 
        aactttggg ggtgtcagt ggcaatggc tttgatgcc 
        cacgtatca agcaatctt ggacagcgc ccttgttgg 
        aggttttga agacaattt ggggactca cagcgtaat 
        tgccggcct gtggtcctg tgtatattc cctgggtga 
        agttctcgg acctataat agggggaac tcttctcca 
        aaattacgg attttcgct aacatcgac agttttttc 
        gttgctgaa tttaataat ggcgatttt gggaacgat 
        gtattttct actcaggcg gaagtctaa taaggatcg 
        aaacatatt tatcgatca agctggttt ccagaaata 
        tagacaaaa aaatgctga aattatttt agggacaat 
        actggaaaa tggtgaaaa tggaaaatg gattgccaa 
        gctgaaata gtacaacgt atttatttc catcttgta 
        cacatcacg cacgttttt cgagtcgaa agtgtgcag 
        ttatgaaaa aaaaaaagt tactcattt aataacagt 
        gtcatttac ctaatttta caaaagtaa ataaataaa 
        agattatgt aaagt
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY