Status
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Gene information
General information
TC030683 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_007422.5: 11891076..11893629
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
    TC030683
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06048

    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: 40.0% (includes death as pupa, adult)

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


    adult lethality - Number of animals showing the phenotype: 1 (9 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): 50% - 80%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head partially decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030683 RA
      MDEVLFRGS QKIENLQVQ LSLAAIHSK EILHQYSQQ 
      SKTALLQAW NSSYTQQAK ASLRELWQY FVDLGERVQ 
      TNLLEHLDP EKLYYNLVK VLWKKWTKR DFCFLCAGF 
      ICGSIVGVV FAISIKKKE SVIRYMQAV QCTNYLGIE 
      SATVVENAR APDVCREND VIISVKAAS IHVIDAQIC 
      SGYGRTLRK ILQKIYNKH SKKGLPVTL GRDCAGIIS 
      DIGSNVKRL EVGDEVWLT VPFWDVGTL SQSVIVPEF 
      RIGRKPKNI GYEGACSLP YAGTVALNA LKEVDISQE 
      NAQDKKVLI IGGCTPVGC VLIQILAHW SANVTTTCT 
      KRAVPVAKA LGADDIIIF PPEDNDKSN EGVAAFLKE 
      LELRDKFDC IIMTRNCDL KIKELDFFS QKGIVSTLP 
      EERQSDSCG FCGETLLGT YIYLKSIIE KILGLSLND 
      YDEGHMCYV TLDELSEMV ENGFLQTVV DKVFHPQDI 
      EIALNHIQS DDSIGSTVI TFR
    CDS sequence
    • >TC030683 RA
      atggacgaa gtcctgttc cgcggctcc caaaaaatc 
      gaaaattta caggttcaa ctcagctta gctgcaatc 
      catagcaaa gaaatcctc caccagtat tcccagcaa 
      agcaagact gcactttta caagcatgg aacagttct 
      tatacacaa caagccaaa gcaagttta cgcgaatta 
      tggcaatat ttcgtcgat ttaggcgaa agggtgcaa 
      acaaacctt ttggagcac cttgacccc gagaaactc 
      tactacaat ttggttaaa gtgctttgg aaaaaatgg 
      acaaaaagg gacttttgc tttctgtgt gcaggtttt 
      atctgtgga agcattgta ggcgtagtt tttgcaatc 
      tctattaag aagaaagag tcagtaata cggtacatg 
      caagcagtc cagtgtaca aattattta ggtattgag 
      tcagctact gttgttgaa aacgctaga gcccccgat 
      gtttgtagg gaaaacgat gttataatt agcgtaaaa 
      gcggcctca attcacgta attgatgca caaatctgt 
      agcggttac ggccggacg ttgcgtaaa atcctccaa 
      aaaatatac aataagcat tcgaagaag ggattaccg 
      gtgactttg gggcgcgat tgtgcagga attatctca 
      gacataggc tcaaacgta aaaagacta gaagtaggg 
      gatgaagtg tggctaaca gtcccgttc tgggacgta 
      ggaactctg tcccaaagt gtgattgtg ccagaattc 
      cggataggt cgtaagcca aaaaacata ggatatgag 
      ggtgcttgt agtcttcca tatgcaggg actgtggca 
      ttaaatgca cttaaagaa gttgacatc agccaagaa 
      aatgcacaa gacaagaag gttttgatt atagggggg 
      tgcaccccc gtaggctgc gttttgatc cagatttta 
      gcccactgg agtgccaat gtcaccacc acttgtacc 
      aaaagagca gtgccagtg gccaaagcc ctgggggct 
      gacgatatt atcattttt ccaccggaa gataatgac 
      aaatctaac gaaggtgtg gctgcattt ttgaaagaa 
      ctcgaattg cgcgataaa tttgactgt atcatcatg 
      acaagaaat tgcgatttg aaaataaag gagctcgat 
      tttttttcg caaaagggg atcgtgtcc acgttgccg 
      gaagaacgc caatctgat tcttgtggt ttctgtggg 
      gagacttta ctggggact tacatttat ctaaagtca 
      ataattgag aaaattttg gggctttcc ctgaacgat 
      tacgatgaa ggccatatg tgttatgta accttggat 
      gaattgtct gaaatggtc gaaaatggg tttcttcag 
      acagttgtt gataaagtc tttcatccc caagatatc 
      gaaattgcc ttgaatcat attcagtca gatgattcc 
      ataggcagc actgtcatc acttttagg taa
    mRNA sequence
    • >TC030683 RA
      aattattac agccgtaaa atttaataa ttttgccat 
      tgataacaa atgtggcaa cagtgtcgg gctcaaaac 
      gtcaaaatt ttatcaaaa tttccggtg aaaaaatta 
      ttttctcga taaaaattc taatacaca tacaaattc 
      attcgtact attccaagc ttcccttag acatactta 
      aactgattt tttatcttt tacaaaatt agcatgaca 
      attacataa catttaata ggttttgtt tatttttct 
      tccacaaat catgcttta aaatggacg aagtcctgt 
      tccgcggct cccaaaaaa tcgaaaatt tacaggttc 
      aactcagct tagctgcaa tccatagca aagaaatcc 
      tccaccagt attcccagc aaagcaaga ctgcacttt 
      tacaagcat ggaacagtt cttatacac aacaagcca 
      aagcaagtt tacgcgaat tatggcaat atttcgtcg 
      atttaggcg aaagggtgc aaacaaacc ttttggagc 
      accttgacc ccgagaaac tctactaca atttggtta 
      aagtgcttt ggaaaaaat ggacaaaaa gggactttt 
      gctttctgt gtgcaggtt ttatctgtg gaagcattg 
      taggcgtag tttttgcaa tctctatta agaagaaag 
      agtcagtaa tacggtaca tgcaagcag tccagtgta 
      caaattatt taggtattg agtcagcta ctgttgttg 
      aaaacgcta gagcccccg atgtttgta gggaaaacg 
      atgttataa ttagcgtaa aagcggcct caattcacg 
      taattgatg cacaaatct gtagcggtt acggccgga 
      cgttgcgta aaatcctcc aaaaaatat acaataagc 
      attcgaaga agggattac cggtgactt tggggcgcg 
      attgtgcag gaattatct cagacatag gctcaaacg 
      taaaaagac tagaagtag gggatgaag tgtggctaa 
      cagtcccgt tctgggacg taggaactc tgtcccaaa 
      gtgtgattg tgccagaat tccggatag gtcgtaagc 
      caaaaaaca taggatatg agggtgctt gtagtcttc 
      catatgcag ggactgtgg cattaaatg cacttaaag 
      aagttgaca tcagccaag aaaatgcac aagacaaga 
      aggttttga ttatagggg ggtgcaccc ccgtaggct 
      gcgttttga tccagattt tagcccact ggagtgcca 
      atgtcacca ccacttgta ccaaaagag cagtgccag 
      tggccaaag ccctggggg ctgacgata ttatcattt 
      ttccaccgg aagataatg acaaatcta acgaaggtg 
      tggctgcat ttttgaaag aactcgaat tgcgcgata 
      aatttgact gtatcatca tgacaagaa attgcgatt 
      tgaaaataa aggagctcg atttttttt cgcaaaagg 
      ggatcgtgt ccacgttgc cggaagaac gccaatctg 
      attcttgtg gtttctgtg gggagactt tactgggga 
      cttacattt atctaaagt caataattg agaaaattt 
      tggggcttt ccctgaacg attacgatg aaggccata 
      tgtgttatg taaccttgg atgaattgt ctgaaatgg 
      tcgaaaatg ggtttcttc agacagttg ttgataaag 
      tctttcatc cccaagata tcgaaattg ccttgaatc 
      atattcagt cagatgatt ccataggca gcactgtca 
      tcactttta ggtaaaatt tattttaga caaactgga 
      gattgttta gtacaaagt aattgtaat aaagtggta 
      ataactgtc gtaaaacaa attttagta agtatggca 
      tacattatg aattaacat ttcctacaa aactgtgcc 
      tttttgtac tgccagtaa taatttatt taagactta 
      ttgtttata aatggatgt atgacataa taaatcagt 
      tgttagcaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY