Status
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Gene information
General information
TC004606 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_007416.3: 6698713..6703817
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
    TC004606
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00733

    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)

    Fertility
    mature egg not present - Number of animals showing the phenotype: 3

    egg chamber shape irregular - Number of animals showing the phenotype: 3
    egg chamber slightly number decreased - Number of animals showing the phenotype: 3
    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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

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


    pupal molt not fulfilled (died as pupa) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 6 (16 dpi)
    Days post injection



    Pupal morphology
    wings partially necrotic - Number of animals showing the phenotype: 2

    wings partially blistered - Number of animals showing the phenotype: 2
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004606 RA
      MSSKSELKK LSEESLTRQ PEEVFDIIC KLGEGSYGS 
      VYKALHKES GQVLAIKQV PVDTDLQEI IKEISIMQQ 
      CDSPYVVKY YGSYFKNTD LWIVMEYCG AGSVSDIMR 
      LRKKTLTED EIATILSDT LKGLEYLHL RRKIHRDIK 
      AGNILLNSE GHAKLADFG VAGQLTDTM AKRNTVIGT 
      PFWMAPEVI QEIGYDCVA DIWSLGITA LEMAEGKPP 
      YGDIHPMRA IFMIPTKPP PSFREPDKW SPEFIDFVS 
      VCLVKNPEE RASATDLLS HVFIGNAKL PSILSQMIQ 
      EAHEIRENQ SYRNVSSTA NIVGVRQNI TEESDDEVA 
      LGNQTILPC TDEGTLVPG KGGTLLPVS QSGTLVELG 
      TMVINSDVD EQTMKRHDT GSSQGGKKY RPLFLEHFD 
      KKEAEGNGV VTPTTLDGP EIVPDEQRF QSHFHVQLN 
      QVPSPQQAQ PQEQKAQFH RPFSDGDFE FLKFLSFEE 
      LQQRMAKLD LDMEREIDE LRRRYQIKR QPILDAMDT 
      KRKRQQNF
    CDS sequence
    • >TC004606 RA
      atgtcttcc aagagtgaa ttgaagaaa ctgtctgag 
      gagagtttg actcgtcag ccggaggaa gttttcgat 
      ataatatgc aagctgggg gagggatct tacgggagt 
      gtttacaaa gcactccac aaggaatct ggccaagta 
      ttagcaatt aaacaagta cctgtggat accgatctt 
      caagaaatc atcaaagaa atctcaatc atgcaacag 
      tgcgacagc ccctacgtc gttaagtat tacgggagt 
      tatttcaag aacactgat ctatggatt gtcatggag 
      tactgtggg gccggctcc gtctccgac atcatgagg 
      ctgcgcaaa aagaccctc acggaggac gagatcgcc 
      acgattttg tccgacacc ctcaaaggc ctagaatac 
      ctgcatttg cgccggaaa atccaccgg gatattaag 
      gccggtaac attttactc aattcagag ggccacgcg 
      aagttggct gatttcggc gttgccggg caactgacg 
      gacaccatg gcgaaaaga aacactgtg attggaacc 
      cctttttgg atggctccc gaagttata caagaaata 
      ggatacgac tgtgttgct gatatttgg agtttagga 
      attacggcc cttgagatg gccgagggt aaaccaccc 
      tatggtgat attcacccc atgagagca atattcatg 
      atcccaacc aagccgccc ccttcgttc cgggagcct 
      gacaagtgg tcgcccgaa tttatcgac tttgttagc 
      gtttgtctt gttaaaaat cccgaggaa agggcgagt 
      gccactgat ttactcagt catgtattt ataggtaat 
      gctaagctc cctagtatt ctaagccaa atgattcaa 
      gaagcacac gaaattaga gaaaaccaa agttatagg 
      aatgtatcc tctaccgct aacattgta ggcgttagg 
      cagaacatc actgaagaa tcagatgat gaagtagct 
      ttaggcaat cagactatt cttccttgt acagatgaa 
      ggcaccttg gtacccggc aaaggtggc actttactg 
      ccagtatca cagagtggt actttagta gagcttgga 
      actatggtt atcaacagt gacgttgac gaacaaacc 
      atgaaacgg catgacacg ggttcgagt caaggcggc 
      aagaaatac cggccgttg tttttggag cactttgac 
      aaaaaggag gcggaaggt aacggcgtc gtgacgcct 
      acgacgctt gatggtccc gaaatcgtg cctgacgaa 
      caacgtttc caaagtcat tttcatgta cagttaaac 
      caagtgccg tcgcctcaa caggcccaa cctcaagaa 
      caaaaagca caatttcat cggcctttc tcagatggt 
      gattttgaa tttttgaag tttttgagt ttcgaggag 
      ttgcaacag aggatggcc aaattagat ttagatatg 
      gagagagaa atagacgaa cttcgtagg aggtatcag 
      attaaaaga cagccgatt ttagatgca atggatacg 
      aagcggaag cgacaacag aatttctga
    mRNA sequence
    • >TC004606 RA
      ctcgcaaca tttgactgt attcaacat ggagatttt 
      gattacaag aacatataa tttctagat aagttccaa 
      ttaaagatg tgtagtgtg tttggtctt acgtgtgat 
      ttgtaataa ataaaatgt cttccaaga gtgaattga 
      agaaactgt ctgaggaga gtttgactc gtcagccgg 
      aggaagttt tcgatataa tatgcaagc tgggggagg 
      gatcttacg ggagtgttt acaaagcac tccacaagg 
      aatctggcc aagtattag caattaaac aagtacctg 
      tggataccg atcttcaag aaatcatca aagaaatct 
      caatcatgc aacagtgcg acagcccct acgtcgtta 
      agtattacg ggagttatt tcaagaaca ctgatctat 
      ggattgtca tggagtact gtggggccg gctccgtct 
      ccgacatca tgaggctgc gcaaaaaga ccctcacgg 
      aggacgaga tcgccacga ttttgtccg acaccctca 
      aaggcctag aatacctgc atttgcgcc ggaaaatcc 
      accgggata ttaaggccg gtaacattt tactcaatt 
      cagagggcc acgcgaagt tggctgatt tcggcgttg 
      ccgggcaac tgacggaca ccatggcga aaagaaaca 
      ctgtgattg gaacccctt tttggatgg ctcccgaag 
      ttatacaag aaataggat acgactgtg ttgctgata 
      tttggagtt taggaatta cggcccttg agatggccg 
      agggtaaac caccctatg gtgatattc accccatga 
      gagcaatat tcatgatcc caaccaagc cgccccctt 
      cgttccggg agcctgaca agtggtcgc ccgaattta 
      tcgactttg ttagcgttt gtcttgtta aaaatcccg 
      aggaaaggg cgagtgcca ctgatttac tcagtcatg 
      tatttatag gtaatgcta agctcccta gtattctaa 
      gccaaatga ttcaagaag cacacgaaa ttagagaaa 
      accaaagtt ataggaatg tatcctcta ccgctaaca 
      ttgtaggcg ttaggcaga acatcactg aagaatcag 
      atgatgaag tagctttag gcaatcaga ctattcttc 
      cttgtacag atgaaggca ccttggtac ccggcaaag 
      gtggcactt tactgccag tatcacaga gtggtactt 
      tagtagagc ttggaacta tggttatca acagtgacg 
      ttgacgaac aaaccatga aacggcatg acacgggtt 
      cgagtcaag gcggcaaga aataccggc cgttgtttt 
      tggagcact ttgacaaaa aggaggcgg aaggtaacg 
      gcgtcgtga cgcctacga cgcttgatg gtcccgaaa 
      tcgtgcctg acgaacaac gtttccaaa gtcattttc 
      atgtacagt taaaccaag tgccgtcgc ctcaacagg 
      cccaacctc aagaacaaa aagcacaat ttcatcggc 
      ctttctcag atggtgatt ttgaatttt tgaagtttt 
      tgagtttcg aggagttgc aacagagga tggccaaat 
      tagatttag atatggaga gagaaatag acgaacttc 
      gtaggaggt atcagatta aaagacagc cgattttag 
      atgcaatgg atacgaagc ggaagcgac aacagaatt 
      tctgaactg ttggctcgt tgcaatgga atatggtgc 
      tcaaaaagt taggttttt taatacttg ccatttagt 
      ttatctttg ttgcttttt gagccgaat atcgtggtg 
      aggaaacaa gatgtgttc ctacttatt gtacttaat 
      cagttacgt acagttttt aatatgtta ttctcaatt 
      ttatttcac tagattaaa atgttttgc cataccgga 
      tgcaccagt taaacattt tagttaatc attaatttt 
      aataaaatt gccttcacg acaagtttg agcttttat 
      cagtgttat ttttgtaca gtcatttta actctaggt 
      tataacctg tacgataag tacgcttgc tgtgccttt 
      agtagtacc taggattaa gtacgagtg taaccatat 
      tttttgatc a
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