Status
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Gene information
General information
TC030251 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: 13211001..13212563
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
    TC030251
    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_07462

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection


    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
    • >TC030251 RA
      MARPVETVF RPCLYIFKF FGLYSLSIG SVDANRETL 
      LGIVWSLVV VFCCMSNAI YGIVHRNVQ FKSLLLTLT 
      DTMEICIAF TNATVSIIF LLVIRRKLS SYLQKLSKC 
      DEEFRRLIH KQKYKRTKR LNRIIGFGL ALLLVVIIC 
      TYLWFDTTL YMSEITFVM IGDSMAYCF PFIIGLLVT 
      AQFSLMTLL LKQRFVWIN EKLIQTKLT SALIDDEII 
      PTLENLRRK HDILSSLGA HLNKIYSVP LLLTTLHHF 
      IVIIVTCLL HLQDSKPLK QGHSRLLYN LYDCLVLIF 
      HSVETVAMV MVCSKTRNE VRCYFIAIK KTDFLGEKY 
      SQYFAPLSQ NIQLFSMQL LDDEVEFWA CRIFIINET 
      LLFSASMVG AVTSYLIIV FQMEIDNNK
    CDS sequence
    • >TC030251 RA
      atggccagg ccggtggaa accgtgttt aggccttgc 
      ctttacatt tttaagttt ttcgggttg tattcacta 
      agcataggg agcgtagac gcgaataga gaaacacta 
      ttagggatt gtttggagt ttggtcgtt gtattttgt 
      tgcatgtcg aacgctatt tacggaatt gtacacaga 
      aatgtgcag ttcaagagt ttactccta acactgacc 
      gataccatg gagatttgt atcgcattc accaatgcc 
      acagtttca attatcttt ctactagtg atccggaga 
      aaattatcc tcttatttg caaaaactc agcaaatgt 
      gacgaagag tttcggaga ttgattcac aaacagaaa 
      tacaaacgg acgaaacga cttaatagg ataattgga 
      ttcggcttg gctttgctt ttggttgtg ataatttgt 
      acttacctt tggttcgat accactttg tacatgagc 
      gaaatcact ttcgtcatg attggggat tcgatggcg 
      tattgcttt cccttcatt attggacta cttgtaact 
      gcacaattc tccctgatg acgctattg ctcaagcaa 
      cggtttgtt tggataaat gagaagtta attcagacc 
      aaactaact agtgcatta attgacgac gaaattatc 
      ccaactttg gagaatttg agacggaaa cacgatatt 
      ttgagtagt ctgggagct catctgaat aaaatctac 
      tcagttccg ctgttacta acaactttg catcatttc 
      attgttatt atagtgacg tgtcttctg catctccaa 
      gactcgaag cccttgaaa cagggacat tcgagattg 
      ctatacaat ttgtacgat tgtttagtt ctaatattc 
      cacagtgtg gagacagta gccatggtc atggtttgt 
      tcaaaaaca cgaaacgaa gtaaggtgt tactttatt 
      gcgattaaa aaaaccgat tttttaggc gaaaaatac 
      agccaatat tttgcacca ctttcccaa aacattcag 
      ctgttttcg atgcaattg ttggacgat gaggtcgaa 
      ttttgggct tgtagaata tttataatc aacgagact 
      ttattattc tcggcaagt atggttggt gcagtcaca 
      tcgtatctc attatcgta tttcaaatg gaaattgat 
      aacaataaa taa
    mRNA sequence
    • >TC030251 RA
      aaatacaga caggagtta ttaattgca caatcaaat 
      attcatttc aatgttgta aacaacacg gcaataaat 
      atataaaaa attcatagg cgcgtattt acaatggcc 
      aggccggtg gaaaccgtg tttaggcct tgcctttac 
      atttttaag tttttcggg ttgtattca ctaagcata 
      gggagcgta gacgcgaat agagaaaca ctattaggg 
      attgtttgg agtttggtc gttgtattt tgttgcatg 
      tcgaacgct atttacgga attgtacac agaaatgtg 
      cagttcaag agtttactc ctaacactg accgatacc 
      atggagatt tgtatcgca ttcaccaat gccacagtt 
      tcaattatc tttctacta gtgatccgg agaaaatta 
      tcctcttat ttgcaaaaa ctcagcaaa tgtgacgaa 
      gagtttcgg agattgatt cacaaacag aaatacaaa 
      cggacgaaa cgacttaat aggataatt ggattcggc 
      ttggctttg cttttggtt gtgataatt tgtacttac 
      ctttggttc gataccact ttgtacatg agcgaaatc 
      actttcgtc atgattggg gattcgatg gcgtattgc 
      tttcccttc attattgga ctacttgta actgcacaa 
      ttctccctg atgacgcta ttgctcaag caacggttt 
      gtttggata aatgagaag ttaattcag accaaacta 
      actagtgca ttaattgac gacgaaatt atcccaact 
      ttggagaat ttgagacgg aaacacgat attttgagt 
      agtctggga gctcatctg aataaaatc tactcagtt 
      ccgctgtta ctaacaact ttgcatcat ttcattgtt 
      attatagtg acgtgtctt ctgcatctc caagactcg 
      aagcccttg aaacaggga cattcgaga ttgctatac 
      aatttgtac gattgttta gttctaata ttccacagt 
      gtggagaca gtagccatg gtcatggtt tgttcaaaa 
      acacgaaac gaagtaagg tgttacttt attgcgatt 
      aaaaaaacc gatttttta ggcgaaaaa tacagccaa 
      tattttgca ccactttcc caaaacatt cagctgttt 
      tcgatgcaa ttgttggac gatgaggtc gaattttgg 
      gcttgtaga atatttata atcaacgag actttatta 
      ttctcggca agtatggtt ggtgcagtc acatcgtat 
      ctcattatc gtatttcaa atggaaatt gataacaat 
      aaataaact taaccaaaa aaactaatt gtcggtaca 
      aatacttcg taaactata atttggagt tataaacga 
      gttaataat taataagac acgag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY