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Gene information
General information
TC001134 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: 11465612..11467341
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
      TC001134
      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
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      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
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      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_06796

      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


      adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
      Days post injection


      Fertility
      mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: 5 - Number of animals showing the phenotype: 4
      Analysis of embryonic musculature and early development
      number of eggs/embryos/larvae on slide: < 20 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

      affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: < 20
      embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      cuticle remnants strongly fragmented (cuticle crumbs) - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      larva bristle not present - Penetrance (percentage of animals/eggs on slide): less than 30%
      larva appendages swollen - Penetrance (percentage of animals/eggs on slide): less than 30%

      larva shortened - Penetrance (percentage of animals/eggs on slide): less than 30%
      larva shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
      head appendages swollen - Penetrance (percentage of animals/eggs on slide): less than 30%

      head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
      head bristle not present - Penetrance (percentage of animals/eggs on slide): less than 30%
      legs podomer fused - Penetrance (percentage of animals/eggs on slide): less than 30%
      legs swollen - Penetrance (percentage of animals/eggs on slide): less than 30%
      mesothoracic tracheal opening not present - Penetrance (percentage of animals/eggs on slide): less than 30%
      thorax bristle not present - Penetrance (percentage of animals/eggs on slide): less than 30%
      posterior terminus not present - Penetrance (percentage of animals/eggs on slide): less than 30%
      abdomen shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
      abdomen tracheal opening not present - Penetrance (percentage of animals/eggs on slide): less than 30%
      abdomen bristle not present - Penetrance (percentage of animals/eggs on slide): less than 30%
      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: % (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
      • >TC001134 RA
        MDFNIEIRK KQLDNLDQL ISSSRSRIQ SVLSYLDWT 
        QENVEKGDP LVQCPVNPH HRIHPKSWT EHIEKCVVQ 
        IEGYSSNSQ FLSESLDNP TQSIYIDRN KKIELITKE 
        LAEKGALRL AWNGLDPDP RTSDRLIST FSPDERLIF 
        YNYTVQNTE GPPSPPEFT TLYDKKHDE EKPLTYEEI 
        LAQERDSKR RRAKYKSVH INRKNHTEV IREVINGQM 
        GEYKEWLLA KDQTKDNKE CNNGVHDDK KEEIERPHS 
        STSRNSSSS RSTNRKYDR HRDERDRSR KRYVRSRSR 
        ERSYRSEDR NCEERRNRR NRSGERRRS RERDRRHSR 
        DRSRRSFSD VRRR
      CDS sequence
      • >TC001134 RA
        atggatttt aacattgaa atacgtaag aaacagcta 
        gataatttg gatcagctt atatcttcg tccaggagt 
        agaatccag tcagtgctg agctacctg gactggacg 
        caagaaaac gtcgaaaaa ggggaccct ttggtacaa 
        tgtcctgtc aatcctcat cacaggatt catcctaaa 
        tcttggacc gaacatatt gaaaaatgt gttgttcaa 
        attgaagga tactcttca aacagtcaa tttttatcg 
        gagtctctt gataatcct actcagtca atatacata 
        gatcgcaat aaaaaaatt gaactcatc accaaagaa 
        ctggcagaa aagggcgcc ctaagatta gcctggaat 
        ggattagat cccgaccca aggacttca gatagatta 
        atttcgact ttttctccc gatgaaaga ttaattttt 
        tacaactac acggttcag aatacagaa ggcccccct 
        tcaccacct gaattcaca acgctatat gacaaaaaa 
        cacgatgag gagaagcct cttacttac gaggaaatc 
        ttggcccaa gagcgagac tccaaaagg agaagggcc 
        aagtataag tcggttcat atcaatcgt aaaaaccat 
        acagaagtg atcagagaa gtgataaat ggacaaatg 
        ggagaatac aaagagtgg ttactagcg aaagatcaa 
        actaaagat aataaggag tgtaataat ggtgttcat 
        gacgacaaa aaggaagaa attgaacgt ccacactcc 
        tctactagt agaaattca agcagttct agaagcacc 
        aataggaag tatgacaga catagagat gaacgcgat 
        agaagtagg aagcgttat gtcaggtcc agaagtcga 
        gaaaggagt tacaggagc gaagacagg aattgtgaa 
        gaaaggaga aatagaaga aatcgctca ggggaaaga 
        agacgctca cgagaacga gataggaga cattcaagg 
        gacagaagt agacgtagt ttcagtgac gtaaggaga 
        cgttga
      mRNA sequence
      • >TC001134 RA
        ttcctgatc attttagtt catctaatt ttgtgttgt 
        gccggttgt ctttgggct caatgagag ttaagatcg 
        aatggattt taacattga aatacgtaa gaaacagct 
        agataattt ggatcagct tatatcttc gtccaggag 
        tagaatcca gtcagtgct gagctacct ggactggac 
        gcaagaaaa cgtcgaaaa aggggaccc tttggtaca 
        atgtcctgt caatcctca tcacaggat tcatcctaa 
        atcttggac cgaacatat tgaaaaatg tgttgttca 
        aattgaagg atactcttc aaacagtca atttttatc 
        ggagtctct tgataatcc tactcagtc aatatacat 
        agatcgcaa taaaaaaat tgaactcat caccaaaga 
        actggcaga aaagggcgc cctaagatt agcctggaa 
        tggattaga tcccgaccc aaggacttc agatagatt 
        aatttcgac tttttctcc cgatgaaag attaatttt 
        ttacaacta cacggttca gaatacaga aggcccccc 
        ttcaccacc tgaattcac aacgctata tgacaaaaa 
        acacgatga ggagaagcc tcttactta cgaggaaat 
        cttggccca agagcgaga ctccaaaag gagaagggc 
        caagtataa gtcggttca tatcaatcg taaaaacca 
        tacagaagt gatcagaga agtgataaa tggacaaat 
        gggagaata caaagagtg gttactagc gaaagatca 
        aactaaaga taataagga gtgtaataa tggtgttca 
        tgacgacaa aaaggaaga aattgaacg tccacactc 
        ctctactag tagaaattc aagcagttc tagaagcac 
        caataggaa gtatgacag acatagaga tgaacgcga 
        tagaagtag gaagcgtta tgtcaggtc cagaagtcg 
        agaaaggag ttacaggag cgaagacag gaattgtga 
        agaaaggag aaatagaag aaatcgctc aggggaaag 
        aagacgctc acgagaacg agataggag acattcaag 
        ggacagaag tagacgtag tttcagtga cgtaaggag 
        acgttgaag gtaattttg taagttttc gtcgatttg 
        cgaaagtgt tccgtttga attttataa taaataaaa 
        aatattaaa cagctaaat gaatg
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY