Status
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Gene information
General information
TC005612 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_007423.3: 10625007..10634858
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
    TC005612
    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_00900

    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: 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


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: - Number of animals showing the phenotype: 4
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    bell row not present - Penetrance (percentage of animals/eggs on slide): more than 80%

    gena triplet gena triplet posterior not present - Penetrance (percentage of animals/eggs on slide): 50% - 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: % (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
    • >TC005612 RA
      MASAKDTAT FFTHGTHTQ FEQVLKLYP TALKLKAER 
      RAKKPEELL KLDNWYQNE LPKKIKSRG KDAHIIHEE 
      LVQLMKWKQ CRGKYYPQI SYLVKVNTP RAVMAETKK 
      AFRKLPNLE QAITALSNL KGVGTTMAS ALLAAACPE 
      SAPFMADEC LLAIPDFEG IDYTTKEYL KFVSHINAV 
      ADRLNKAAK ENNRPDAIV WSPHKVELA LWTHYVVSD 
      IQPELLSKN GNSIPPAIV HQNGDSLDT TTSEESNQG 
      LANGKSATL IDEDTNTSF ADNSSPASI EAEETNDSV 
      VSDSTNDSM APEIKRALE EDDSNSMEA PNKKLREDV 
      RDK
    CDS sequence
    • >TC005612 RA
      atggcctcc gctaaagac acggcgacg ttcttcacg 
      cacggtact cacacgcag ttcgaacag gtcctcaaa 
      ctctacccc acagccctc aaactcaag gcggaacgc 
      agggccaag aagccggag gagctcctc aaattggac 
      aattggtat cagaatgaa ctccccaaa aaaataaaa 
      agcaggggc aaggacgcc cacataatc cacgaagag 
      ctcgtccag ttgatgaaa tggaaacaa tgtcgtggc 
      aaatactac ccccaaatc tcctactta gtaaaagta 
      aacacacca agagccgtc atggcagag accaaaaaa 
      gcattcagg aaacttcca aatctcgaa caagccatc 
      accgcctta tcaaattta aaaggtgta ggcacaacg 
      atggcttca gcactgtta gcggcagcg tgtccagaa 
      agcgcccct ttcatggcc gatgagtgt ctactggcg 
      atcccggat ttcgaaggc atcgattat accacaaag 
      gagtacctg aagttcgtc agtcacatc aacgcggtg 
      gcagataga ctgaataag gccgcaaag gaaaataac 
      aggccggac gctatcgtt tggtcgccc cataaagtc 
      gagctggcg ctgtggaca cattatgtt gtttcagac 
      atacagccg gagttgctc tctaaaaat gggaactcg 
      atcccgccg gcgatcgtg caccaaaac ggcgactcc 
      ctcgacacc accacgtcc gaagagagc aaccaaggc 
      ctggcgaac ggaaaatca gcaacgctg atcgacgag 
      gacaccaac acctcgttt gcggacaac agcagccct 
      gcctccata gaagccgaa gagacgaac gattcggtg 
      gtctcggat tcgacaaat gattcgatg gctcctgaa 
      atcaaacga gcccttgaa gaggacgat tccaactcg 
      atggaggcc cccaacaaa aaactcagg gaggacgta 
      cgagataag tga
    mRNA sequence
    • >TC005612 RA
      cacggagta taatttcgt tgattactc catggtgta 
      tgcatgtaa ccgggtaaa aagcggcgg cagcggaga 
      aacgagcgc ttgtcgtgc tgtaaatac gatatcaca 
      ggaaacaaa caagcgctg ttgccggat tgggaatta 
      tttagcagg tctcagggc accgttagc tgaaaacgc 
      gagattgta agaagcgtt tcgtcatcg ccgctcatt 
      gcccagcgg cgggtttta accgttcgt ctgaaaagc 
      cgctatcgg tgccttcgt ggaaggacg agggttaga 
      gacaaaagt gcccgaaat tttttgctc gccattgta 
      cttcattca aacggacaa tatacagtc tgtattatc 
      ttagattat cttatcatc agcgtgttt aatgaaggg 
      ctttttcaa tagattcaa aacttaggc tttagactg 
      accagacgc cgaaaattc atctttctt atgggccat 
      ttttcaata aaaacgcct gatcttgcc cgtgaattt 
      aaatgttta atgaggcca cgtctcccg atgacggtc 
      ataagagtg ttttgtgct aattaatcc ggaatttga 
      gcatgattg cgcattgat atttccgaa agagtgaag 
      aaagtcctc agaaatcgc ttcaggagc gccgaaatg 
      ggcgttgcg gttgctacg ttgtcgctg gcacgtagc 
      gaggccgct cgctcgaat ccggtcgcg atttcagga 
      cgctttggt ccttggcgg tccgcatcc tccgtgccc 
      tccttcagc cagcaaaag ctgtgcttt tctgatttc 
      agctgtcgt ctgagccga aatccgata agggagcga 
      tcggtgcac cagctggca acgccgctt gggaatgtc 
      agacgttgt caggcccgg ctaggggaa acatcgggc 
      gatcgaggc cacgccagt gccgccacc gccggcgat 
      ctctcgcac tacagtaca gtacgccag ttcgtgaac 
      agctatggc ctccgctaa agacacggc gacgttctt 
      cacgcacgg tactcacac gcagttcga acaggtcct 
      caaactcta ccccacagc cctcaaact caaggcgga 
      acgcagggc caagaagcc ggaggagct cctcaaatt 
      ggacaattg gtatcagaa tgaactccc caaaaaaat 
      aaaaagcag gggcaagga cgcccacat aatccacga 
      agagctcgt ccagttgat gaaatggaa acaatgtcg 
      tggcaaata ctaccccca aatctccta cttagtaaa 
      agtaaacac accaagagc cgtcatggc agagaccaa 
      aaaagcatt caggaaact tccaaatct cgaacaagc 
      catcaccgc cttatcaaa tttaaaagg tgtaggcac 
      aacgatggc ttcagcact gttagcggc agcgtgtcc 
      agaaagcgc ccctttcat ggccgatga gtgtctact 
      ggcgatccc ggatttcga aggcatcga ttataccac 
      aaaggagta cctgaagtt cgtcagtca catcaacgc 
      ggtggcaga tagactgaa taaggccgc aaaggaaaa 
      taacaggcc ggacgctat cgtttggtc gccccataa 
      agtcgagct ggcgctgtg gacacatta tgttgtttc 
      agacataca gccggagtt gctctctaa aaatgggaa 
      ctcgatccc gccggcgat cgtgcacca aaacggcga 
      ctccctcga caccaccac gtccgaaga gagcaacca 
      aggcctggc gaacggaaa atcagcaac gctgatcga 
      cgaggacac caacacctc gtttgcgga caacagcag 
      ccctgcctc catagaagc cgaagagac gaacgattc 
      ggtggtctc ggattcgac aaatgattc gatggctcc 
      tgaaatcaa acgagccct tgaagagga cgattccaa 
      ctcgatgga ggcccccaa caaaaaact cagggagga 
      cgtacgaga taagtgaca aatacgggc gtatcatta 
      agtttatta tttttttaa ctaaattaa aagatgtaa 
      tcgtgtaag gtttagatt aactgtaca cacaactgt 
      ttttttgtc gtggtcaag tgggggttt ttgagtgta 
      gctctgtgt gttacttct cctctcatt atcctccca 
      agtggcact caaaacgga cccatttca tgttatatt 
      tgccccgta aaacagaaa tcttcacag agatagaaa 
      tagttgcgt gtgattcgt gcaagagtc tttaggatt 
      ttcggcggc gctttgttg ttcgaggtg aataaaaag 
      ggaggggcc gcagttaaa actaaattg gtacgtccc 
      ttttttgca tttgccaaa caacgaggt taccacttt 
      gagtaaaat tttcacctg aaatatcga catatttca 
      ttgtaatat ttgtttttc tgtataatt gttccgttg 
      ttttttata tgtacatgt aagtagtcg cattatttt 
      gataccgat cttaatcaa ctttcttat tattataca 
      tgtaagaat agactaagt aatttattt ttcattgtt 
      ttttcgttt taaatttag gcattcatt ttattagcg 
      taattgacg aacattcca atttttcat ttgactttt 
      atattactt acgaaaggt tacatgaac ttttacatt 
      tgaagatgt gttgttgcg cagtgtaca tatgacatt 
      tctttagtt tccttccgt tcagtgatt acatcagga 
      gcagacttc aaatgtgaa ttttcgcat cggtgttat 
      aaaatcgta ttcaacggg agtacaaac caaccaatt 
      cggaagaga aaatcagaa accaaggca cgcgatttt 
      gtaatttcg agttagaga tgctccatt ttaatataa 
      aatatttat atga
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