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Gene information
General information
TC001617 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.

scaffold_seqid2: 1129107..1130905
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
    TC001617
    iBeetle screen iB_03220
    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)

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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larva partially dorsalnot closed - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment: Potentially due to problems with dorsal closure.
    abdomen irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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: % (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
    • >TC001617 RA
      MSILCLEAM AYFFEFSPE SAARNSQRI MQVILDSLY 
      SHISNASVI REVKFLLSK IVVNSSCKD IVQDSFIPF 
      TIKLIYKSC PSPLSLKVD VPERGFDLL NTVVKFYPE 
      TIDNNVVLQ GFLAACNCI LDFNESSIM EVATIFISN 
      ILMKASFQI KTLRDIKGK ILAEYVPDV LFKLLEPYP 
      QEAVCPSKF GRLCVISIM TLPEQIQPC IESILKALL 
      SALQRTNCR DPIKSYCFI FAYMFMWQT ESIVNFLSG 
      IPGPDGCSA LSYFLNKWQ INMLHCEKF EKSIITLAL 
      CKMIEYSFT QKDDRINEC RIHLEAPFN DDCSGLEKL 
      YLCLIKILL SEVDGDCKY YRETDEVIN DVLVKNHPV 
      CDLDLVEHI KSFIGSYNT HHYYNVVKK FIQKSEENV 
      LRELEKNSK PATL
    CDS sequence
    • >TC001617 RA
      atgtcaatc ctgtgtctt gaagcaatg gcctatttt 
      tttgagttt tcacccgaa agtgcggct cgtaactcg 
      caacgtatc atgcaggtt attctagac tcgctctat 
      tcgcacatt tcgaacgct agcgtgatc cgagaggta 
      aagtttctc ctaagtaaa atcgtggtg aattcgagt 
      tgtaaagac atagtccag gatagtttc attccgttt 
      acgataaaa ctgatttat aagagttgt cccagtcct 
      ttaagcctg aaagttgac gttccggaa cgcggattt 
      gatttattg aacactgtg gtgaagttt taccccgaa 
      acaattgac aataacgtg gtgcttcag gggttcttg 
      gctgcgtgt aactgtatc ctggatttt aacgaaagt 
      agcattatg gaagttgct accattttc attagtaat 
      attttgatg aaagcgtcc ttccaaatt aaaactttg 
      agggacatc aagggcaaa atcctagct gaatatgta 
      cctgacgtt ctgtttaaa ctactagaa ccgtatcca 
      caagaagcc gtttgtccg tcgaaattc ggacgcttg 
      tgcgttatc agtattatg acactacct gagcaaatc 
      caaccctgt attgaatca atacttaag gcccttctc 
      agtgcgttg caacgaacg aattgtcgc gatccaatc 
      aaaagttac tgttttatt ttcgcttac atgttcatg 
      tggcaaact gaaagcatt gttaatttc ctatcgggg 
      attcccggg ccggacggt tgcagcgcc ttgtcttat 
      ttcctaaat aagtggcaa ataaacatg ctacattgt 
      gagaagttc gaaaagagt ataattact ttagcttta 
      tgcaaaatg attgaatac tcatttacg caaaaagac 
      gacaggatt aacgaatgt aggatacat ctggaagca 
      ccattcaac gacgattgt tcaggcctt gagaaactc 
      tacttgtgc ctaatcaaa atattattg agcgaagtt 
      gacggcgat tgtaaatat tatcgggaa acagacgaa 
      gtaattaac gatgtgtta gtcaagaat catccagtt 
      tgtgattta gatttagtg gaacatata aaatcattc 
      atcgggagc tacaatacg caccattat tacaacgtg 
      gtgaagaaa tttatacaa aagtccgag gaaaatgtg 
      cttcgagag ttggagaaa aatagcaag ccggccact 
      ttatag
    mRNA sequence
    • >TC001617 RA
      cctgtagct ggataattg gggttccct cttttttgt 
      ttccgcccc ttatctcac acgattttt agtgcaatt 
      aggtcgcat ctctcaaca ctcaaatcc aacccccac 
      cgaatggta ttctcaaat tctcaaacc ggaataact 
      gaatgtttg ttcagtatt tcggttttt tcgccaacg 
      atgtcaatc ctgtgtctt gaagcaatg gcctatttt 
      tttgagttt tcacccgaa agtgcggct cgtaactcg 
      caacgtatc atgcaggtt attctagac tcgctctat 
      tcgcacatt tcgaacgct agcgtgatc cgagaggta 
      aagtttctc ctaagtaaa atcgtggtg aattcgagt 
      tgtaaagac atagtccag gatagtttc attccgttt 
      acgataaaa ctgatttat aagagttgt cccagtcct 
      ttaagcctg aaagttgac gttccggaa cgcggattt 
      gatttattg aacactgtg gtgaagttt taccccgaa 
      acaattgac aataacgtg gtgcttcag gggttcttg 
      gctgcgtgt aactgtatc ctggatttt aacgaaagt 
      agcattatg gaagttgct accattttc attagtaat 
      attttgatg aaagcgtcc ttccaaatt aaaactttg 
      agggacatc aagggcaaa atcctagct gaatatgta 
      cctgacgtt ctgtttaaa ctactagaa ccgtatcca 
      caagaagcc gtttgtccg tcgaaattc ggacgcttg 
      tgcgttatc agtattatg acactacct gagcaaatc 
      caaccctgt attgaatca atacttaag gcccttctc 
      agtgcgttg caacgaacg aattgtcgc gatccaatc 
      aaaagttac tgttttatt ttcgcttac atgttcatg 
      tggcaaact gaaagcatt gttaatttc ctatcgggg 
      attcccggg ccggacggt tgcagcgcc ttgtcttat 
      ttcctaaat aagtggcaa ataaacatg ctacattgt 
      gagaagttc gaaaagagt ataattact ttagcttta 
      tgcaaaatg attgaatac tcatttacg caaaaagac 
      gacaggatt aacgaatgt aggatacat ctggaagca 
      ccattcaac gacgattgt tcaggcctt gagaaactc 
      tacttgtgc ctaatcaaa atattattg agcgaagtt 
      gacggcgat tgtaaatat tatcgggaa acagacgaa 
      gtaattaac gatgtgtta gtcaagaat catccagtt 
      tgtgattta gatttagtg gaacatata aaatcattc 
      atcgggagc tacaatacg caccattat tacaacgtg 
      gtgaagaaa tttatacaa aagtccgag gaaaatgtg 
      cttcgagag ttggagaaa aatagcaag ccggccact 
      ttatagctt tgttatgcg gaagtaaaa ttatcgttg 
      ggggagcct ctgagttag gtcgaaaac agtaaccat 
      aaacggcgg gaaattgtt ccatataag tgatccatc 
      acatagtct ttaattaca caactgttt aataacact 
      ttttaattt tttttgctt tcaaattcc aacaataaa 
      cactttcta ccatc