Status
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Gene information
General information
TC033859 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: 13892271..13894045
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
    		TC033859
    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
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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_09256

    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: 30.0% (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

    Fertility
    mature egg not present - Number of animals showing the phenotype: 4
    vitellarium size decreased -
    previtellogenic egg chamber not present - Number of animals showing the phenotype: 2
    vitellogenic egg chamber potentially fused - Number of animals showing the phenotype: 2
    vitellogenic egg chamber number decreased - Number of animals showing the phenotype: 2
    vitellogenic egg chamber potentially degenerated - Number of animals showing the phenotype: 2

    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
    • >TC033859 RA
      MFRPISVKL ETVDEYLQQ NDYSALELY LKKEFRLEK 
DETGVPLKI EFSTQAVDL LHKILKTLS EQSLSKNHE 
GIIKELFRS LRNYVINSD VQNYLVNDE NFLPNVSNF 
MNLQSEVIQ NAFQIILQF LFNLIISNK SAVDRVYDV 
FYPTILSLL KDKKNIYET SALLYNMSL YKELNMDFD 
TYSFLLELY DSHNSVEYL YFMLEKLIS DCNFWNYYL 
KFESNKRAA VLGVIRDKQ IKGEALNIP VTGLKVLTN 
QFVASGNII FQTVQNKDS SLEAYEISQ LVQVISSFC 
SNEDYLKVL QSDKDLLIN SGVLLINIH RLGKESENC 
FTSIQNLSE IREPNKNIQ EHPAFGFKA DLIRIIGNL 
CWKNKIMQD LTREAELIP VILDCCNMD ARNPFIMQW 
VILAVRNLC ENNMENQKI IAELHQQGT VSSSVLQEL 
GVTLESDGD RAIKIVSLD SLRKQK
    CDS sequence
    • >TC033859 RA
      atgtttaga ccaatatcc gtaaaactg gaaactgtc 
gatgaatac ctgcagcag aatgattat tccgctctt 
gaactttat ttaaagaaa gaatttagg ctggaaaag 
gacgagaca ggtgtcccc ctaaagatt gaattttca 
actcaagct gtggatttg ctacataaa attttaaag 
acactttct gagcaaagc ctaagcaaa aatcatgaa 
ggaatcata aaagaattg tttaggagt ctaaggaat 
tatgttata aattcagac gttcaaaat tatttagtt 
aatgacgaa aattttcta ccgaatgtg tccaatttt 
atgaactta cagtctgaa gtgatacaa aatgcattc 
caaattatt ttacaattt ttgtttaat ttaataata 
tcaaataaa agtgctgtg gatagagta tatgatgtg 
ttttatcct acaatactt tcactcttg aaagacaag 
aaaaacatt tacgaaacg tctgccctt ttatataac 
atgtcttta tacaaggaa ttgaacatg gattttgac 
acgtattct tttctcctt gaactttac gactctcac 
aatagtgta gaatatttg tacttcatg ttagaaaaa 
ctaataagt gattgtaat ttttggaat tattactta 
aaatttgag agtaataag agggcagca gtgttgggc 
gtaatcaga gataaacag attaaagga gaggcatta 
aatatacca gtaacgggt ttaaaagtg ttaactaac 
caatttgta gcgtctggt aatattatt tttcaaaca 
gttcaaaat aaagattca agtttggaa gcttatgag 
atatcgcag cttgtgcaa gtcatatcg tctttctgt 
agtaatgaa gattattta aaagtgcta caaagcgat 
aaagattta ttaatcaac tctggtgtt ttattaatc 
aatatccac agactagga aaagaaagt gaaaattgt 
tttacttca atacagaat ttgtctgaa attagagaa 
cctaataaa aacatccaa gaacatcca gctttcgga 
tttaaggcg gacttgata aggataatt ggtaatttg 
tgctggaaa aacaaaatt atgcaggac ttgacaaga 
gaagccgag ctcattcca gttattttg gactgttgt 
aacatggac gcaagaaat cctttcata atgcaatgg 
gttatattg gccgtgcgt aatttgtgc gaaaacaac 
atggaaaat cagaaaatt attgctgag ttgcatcaa 
caaggaact gtttcttct tcagtgctg caagaatta 
ggagtaacg ttagagagt gatggcgac agagctata 
aaaattgta tcattagat tcattgcga aaacagaaa 
taa
    mRNA sequence
    • >TC033859 RA
      gtagggttg gtgcttgat tttcaaatt tgacaccta 
acctttaaa aattagcca aaatagtat aaaaattgt 
gagcttttt cgacgtgaa aataaatta tgtttagac 
caatatccg taaaactgg aaactgtcg atgaatacc 
tgcagcaga atgattatt ccgctcttg aactttatt 
taaagaaag aatttaggc tggaaaagg acgagacag 
gtgtccccc taaagattg aattttcaa ctcaagctg 
tggatttgc tacataaaa ttttaaaga cactttctg 
agcaaagcc taagcaaaa atcatgaag gaatcataa 
aagaattgt ttaggagtc taaggaatt atgttataa 
attcagacg ttcaaaatt atttagtta atgacgaaa 
attttctac cgaatgtgt ccaatttta tgaacttac 
agtctgaag tgatacaaa atgcattcc aaattattt 
tacaatttt tgtttaatt taataatat caaataaaa 
gtgctgtgg atagagtat atgatgtgt tttatccta 
caatacttt cactcttga aagacaaga aaaacattt 
acgaaacgt ctgcccttt tatataaca tgtctttat 
acaaggaat tgaacatgg attttgaca cgtattctt 
ttctccttg aactttacg actctcaca atagtgtag 
aatatttgt acttcatgt tagaaaaac taataagtg 
attgtaatt tttggaatt attacttaa aatttgaga 
gtaataaga gggcagcag tgttgggcg taatcagag 
ataaacaga ttaaaggag aggcattaa atataccag 
taacgggtt taaaagtgt taactaacc aatttgtag 
cgtctggta atattattt ttcaaacag ttcaaaata 
aagattcaa gtttggaag cttatgaga tatcgcagc 
ttgtgcaag tcatatcgt ctttctgta gtaatgaag 
attatttaa aagtgctac aaagcgata aagatttat 
taatcaact ctggtgttt tattaatca atatccaca 
gactaggaa aagaaagtg aaaattgtt ttacttcaa 
tacagaatt tgtctgaaa ttagagaac ctaataaaa 
acatccaag aacatccag ctttcggat ttaaggcgg 
acttgataa ggataattg gtaatttgt gctggaaaa 
acaaaatta tgcaggact tgacaagag aagccgagc 
tcattccag ttattttgg actgttgta acatggacg 
caagaaatc ctttcataa tgcaatggg ttatattgg 
ccgtgcgta atttgtgcg aaaacaaca tggaaaatc 
agaaaatta ttgctgagt tgcatcaac aaggaactg 
tttcttctt cagtgctgc aagaattag gagtaacgt 
tagagagtg atggcgaca gagctataa aaattgtat 
cattagatt cattgcgaa aacagaaat aaaatgtaa 
tttatgaat tatgcttag ttaataaag tttagaaaa 
ctga

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY