Status
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Gene information
General information
TC012611 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_007424.3: 12136884..12138596
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
    TC012611
    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
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    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_05279

    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: 20.0% (includes death as pupa, adult)

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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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
    • >TC012611 RA
      MFWGLSPAL DLQEQYLKE NKTLPEELN ILLVGGADS 
      RHVLQTLAR RYRHTTTKL NFYVMEASV ETIAKQLLL 
      LNVALQDPS IMGLVQKVK FFMELYGNT LVRPAVAKF 
      LTATATQLV KMVTDYEYL NQVMPFVTL EIKYKERDY 
      LENLLKFWC GRDEFDICD YWDRRLRKN LGVRYDSKL 
      GAFDWDLHM RLHSVGGKQ LCNQEYRNF RLNGVAFSW 
      LESEVSKPN RSMVCLAIP NGEKFVHYG YLGDMQTGP 
      FVSFGLECE DENYLKATN GQNMHRATD VTERNLCQI 
      FHEIQYGET YSHRNTSDK QLGPVVMQV GEKRVIDTK 
      TNETRNTAK NKCIDLEDV SIKFVSLSL LKLMLHKNE 
      YREFFQIIY FGCFYTEHL NKDLVDRVL AKDGLVLVE 
      NQKFVVTHR DKQLQEFGE NVRKALEGS KLTESCFDP 
      CKDNFARFV KA
    CDS sequence
    • >TC012611 RA
      atgttctgg ggcctatct ccagcctta gacctccaa 
      gaacaatac ctcaaagaa aacaaaacc ctccccgag 
      gagctaaac attttactc gtcggaggt gcagacagt 
      cgccacgtc ctccaaacg ctagcccgc cgttacaga 
      cacacaacc accaaactc aacttttac gtgatggaa 
      gcgagcgtt gaaacgatc gccaaacaa ctcctcctc 
      ctaaacgtg gccctgcaa gacccctca attatgggc 
      cttgtgcag aaagtgaag ttttttatg gaactgtac 
      ggcaacacg cttgtgcgg cccgccgta gccaaattc 
      ctcacagcc acagcgacc caattagtg aaaatggtg 
      acggactac gaatacttg aaccaagta atgcccttc 
      gtgaccctc gagataaaa tacaaagaa cgtgactat 
      ctggagaac ttgttgaaa ttctggtgc ggtcgcgac 
      gaattcgac atttgcgat tattgggac aggcgtctg 
      aggaagaat ttgggcgtg aggtacgac tcgaaattg 
      ggggctttc gactgggac ctccacatg aggctccat 
      tcagttgga ggcaagcaa ttgtgtaat caagagtat 
      cgcaatttc cgactaaac ggggtcgcg ttttcgtgg 
      ctggaatcg gaagtttcg aagccgaac cgatcgatg 
      gtgtgtctg gcgatcccg aacggggaa aagttcgtc 
      cattatggg tatttgggg gacatgcag accggtccg 
      ttcgtttcg ttcggactg gaatgcgaa gacgagaac 
      tatctcaaa gctacgaac ggccaaaac atgcacaga 
      gccaccgat gtgaccgag cgcaatctc tgccaaatc 
      ttccacgag atacaatac ggggagacg tactcccac 
      agaaacacc tccgataaa cagctaggg cccgtggtt 
      atgcaagtc ggcgaaaaa cgggttatt gataccaaa 
      acgaacgaa acgcggaac accgccaaa aataagtgt 
      atcgattta gaagatgta agcatcaaa ttcgtttca 
      ttgtcgctc ctcaagcta atgctgcac aaaaatgag 
      taccgggag ttcttccaa ataatctac tttgggtgt 
      ttttacacc gagcattta aataaggat ttggtggac 
      cgcgttttg gcaaaagac gggctagtt ttagtggaa 
      aaccaaaaa tttgtggta acgcatcgc gacaaacag 
      ttacaagag ttcggtgag aacgtgaga aaggcccta 
      gaggggtca aaactcaca gagagctgt tttgatcca 
      tgcaaagac aattttgca agatttgtg aaggcctaa
    mRNA sequence
    • >TC012611 RA
      tgacagtga cagtgccac tacaatgtt ctggggcct 
      atctccagc cttagacct ccaagaaca atacctcaa 
      agaaaacaa aaccctccc cgaggagct aaacatttt 
      actcgtcgg aggtgcaga cagtcgcca cgtcctcca 
      aacgctagc ccgccgtta cagacacac aaccaccaa 
      actcaactt ttacgtgat ggaagcgag cgttgaaac 
      gatcgccaa acaactcct cctcctaaa cgtggccct 
      gcaagaccc ctcaattat gggccttgt gcagaaagt 
      gaagttttt tatggaact gtacggcaa cacgcttgt 
      gcggcccgc cgtagccaa attcctcac agccacagc 
      gacccaatt agtgaaaat ggtgacgga ctacgaata 
      cttgaacca agtaatgcc cttcgtgac cctcgagat 
      aaaatacaa agaacgtga ctatctgga gaacttgtt 
      gaaattctg gtgcggtcg cgacgaatt cgacatttg 
      cgattattg ggacaggcg tctgaggaa gaatttggg 
      cgtgaggta cgactcgaa attgggggc tttcgactg 
      ggacctcca catgaggct ccattcagt tggaggcaa 
      gcaattgtg taatcaaga gtatcgcaa tttccgact 
      aaacggggt cgcgttttc gtggctgga atcggaagt 
      ttcgaagcc gaaccgatc gatggtgtg tctggcgat 
      cccgaacgg ggaaaagtt cgtccatta tgggtattt 
      gggggacat gcagaccgg tccgttcgt ttcgttcgg 
      actggaatg cgaagacga gaactatct caaagctac 
      gaacggcca aaacatgca cagagccac cgatgtgac 
      cgagcgcaa tctctgcca aatcttcca cgagataca 
      atacgggga gacgtactc ccacagaaa cacctccga 
      taaacagct agggcccgt ggttatgca agtcggcga 
      aaaacgggt tattgatac caaaacgaa cgaaacgcg 
      gaacaccgc caaaaataa gtgtatcga tttagaaga 
      tgtaagcat caaattcgt ttcattgtc gctcctcaa 
      gctaatgct gcacaaaaa tgagtaccg ggagttctt 
      ccaaataat ctactttgg gtgttttta caccgagca 
      tttaaataa ggatttggt ggaccgcgt tttggcaaa 
      agacgggct agttttagt ggaaaacca aaaatttgt 
      ggtaacgca tcgcgacaa acagttaca agagttcgg 
      tgagaacgt gagaaaggc cctagaggg gtcaaaact 
      cacagagag ctgttttga tccatgcaa agacaattt 
      tgcaagatt tgtgaaggc ctaagtgcg cacactggt 
      gttaattaa atttttatg aacaaatta tttttagga 
      ttcgacgat agtgattta aataaaagt cattgtttt 
      atttgcttt ttttaacaa caaactaat tcggttcgt 
      aattccaag tcaaatagt gtgaacatg taatcaccg 
      aataaatcc cactgaaca tctcttaaa gcacaaaaa 
      aatatatga aatgcgtat tgttcaacc atgtacgag 
      tacattcta ccaaattga tatttgata ttgttaggg 
      aaacaggct ttgttatat tgcccctcg gaaaggaat 
      aatgactcc aattgatac tcagtgaat gaaatgctg 
      caataaaat aagatatcg cta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY