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Gene information
General information
TC002337 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.

NW_015452276.1: 231844..236814
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
    		TC002337
    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_03354

    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)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Fertility
    egg chamber potentiallynumber decreased - Number of animals showing the phenotype: 4

    vitellogenic egg chamber late potentiallydegenerated - Number of animals showing the phenotype: 4

    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
    • >TC002337 RA
      MPQETTDNP LIEKRTLYA GTKPVSFKD GTKVHFHFQ 
TRLCDKEKT LLDDSRKMG SGKPFELVL GKKFKLEVW 
EAVVQKMAL NEVAEFKVK KELVMQYPF VSKTLRDVA 
LPREARKSH CCAMTIQTE GVGYDDLNT FLKDPSDLE 
FTIELVKVE QPEDYEKES WQMDEEEKL KKVPELKEQ 
GNAEFKKKN YEEASDYYA KAIGIIEQL MIKEKPHDV 
EWNELDKMK VPILLNYAQ CKLNQGDYY TVIEHCTTA 
IKSDPDNVK AYYRRAKAH VGAWNTREA FDDFKKVIE 
LDPSLTTTV KKETAALEE QMKKKDLED KQKLKNLFS
    CDS sequence
    • >TC002337 RA
      atgccgcaa gaaaccaca gacaatcct ctaatcgag 
aaacgcact ctctatgcg ggaacaaaa cctgtctct 
ttcaaagat ggaacaaag gtccatttc cacttccaa 
acacgtcta tgtgacaag gaaaagacc cttttggac 
gactctagg aaaatgggt tcggggaaa ccatttgag 
ctggtttta ggcaaaaaa ttcaaactg gaggtatgg 
gaggcggtt gtgcagaaa atggctttg aatgaagtc 
gctgagttt aaagtcaag aaagagcta gtcatgcaa 
tatccattc gtttcgaag actttaaga gacgttgct 
ttgccgaga gaggcaagg aaaagtcac tgttgcgct 
atgacgatt cagactgaa ggggtgggt tacgatgac 
ttgaatact tttttaaaa gatccctca gatttggaa 
tttacaatt gaattagtc aaagttgaa caaccagaa 
gattacgaa aaagaatcg tggcaaatg gacgaagag 
gaaaaactg aaaaaagta cctgaatta aaagagcaa 
ggaaatgca gaatttaag aaaaaaaat tacgaggaa 
gcgtcagat tattacgcc aaagctata gggattatt 
gaacaactc atgattaaa gaaaaacct cacgatgta 
gaatggaac gagttggat aaaatgaaa gttccaatc 
ttactgaat tacgctcag tgtaagcta aatcagggg 
gattattat accgtgatt gagcactgc actactgct 
attaaaagt gatccagat aatgtgaag gcgtactat 
cggagggcc aaagcccac gtgggtgct tggaacact 
cgagaggct ttcgacgat ttcaaaaaa gtgatagaa 
ctcgatcct tccctcacc accacggtg aaaaaagag 
acggcagct ttggaagag caaatgaag aagaaagat 
ttggaagac aaacagaaa ttgaaaaac ttattcagt 
taa
    mRNA sequence
    • >TC002337 RA
      tgtataatt cgctcaatt tttcgttgt tgggaggtt 
atgttcgag acaagtcaa caaacgtca ataacttgt 
tatcaaaat agttttatt aatttccgg gtccaattt 
tggcaagaa taaaaaata agtatgccg caagaaacc 
acagacaat cctctaatc gagaaacgc actctctat 
gcgggaaca aaacctgtc tctttcaaa gatggaaca 
aaggtccat ttccacttc caaacacgt ctatgtgac 
aaggaaaag acccttttg gacgactct aggaaaatg 
ggttcgggg aaaccattt gagctggtt ttaggcaaa 
aaattcaaa ctggaggta tgggaggcg gttgtgcag 
aaaatggct ttgaatgaa gtcgctgag tttaaagtc 
aagaaagag ctagtcatg caatatcca ttcgtttcg 
aagacttta agagacgtt gctttgccg agagaggca 
aggaaaagt cactgttgc gctatgacg attcagact 
gaaggggtg ggttacgat gacttgaat actttttta 
aaagatccc tcagatttg gaatttaca attgaatta 
gtcaaagtt gaacaacca gaagattac gaaaaagaa 
tcgtggcaa atggacgaa gaggaaaaa ctgaaaaaa 
gtacctgaa ttaaaagag caaggaaat gcagaattt 
aagaaaaaa aattacgag gaagcgtca gattattac 
gccaaagct atagggatt attgaacaa ctcatgatt 
aaagaaaaa cctcacgat gtagaatgg aacgagttg 
gataaaatg aaagttcca atcttactg aattacgct 
cagtgtaag ctaaatcag ggggattat tataccgtg 
attgagcac tgcactact gctattaaa agtgatcca 
gataatgtg aaggcgtac tatcggagg gccaaagcc 
cacgtgggt gcttggaac actcgagag gctttcgac 
gatttcaaa aaagtgata gaactcgat ccttccctc 
accaccacg gtgaaaaaa gagacggca gctttggaa 
gagcaaatg aagaagaaa gatttggaa gacaaacag 
aaattgaaa aacttattc agttaaata aatatggaa 
aacaattta ttccgactc aaactccct taaataata 
ctaaaatat cacattgaa ttacatgga tacacattt 
ttggcacga tacactaat ggaatgttg gcaatactg 
tcttacaat aaaataatt gagtggtcg cgttccagc 
cgccgcctt gctttcagt ggaacgttg ctcatgggg 
tccgccggt gttggcaac cctgcattg gggttggca 
gcctggtgg taaaacacc tcagacttg ccacactga 
tagccgtaa attacgccg tcacaacat ctgcaacaa 
aaaattaat aaaaacaac cacttttct gttgttacc 
aaatcgccg aattgagta actgtcgat tgtgaaatc 
agacgattc ctcgatttt tttctgcgc gacttcggt 
gaaccgtct aaagagcaa aatgttcaa aacagcaca 
aataaacga cattagggc cgaaaaacc gagcgccat 
tacaagctc gagcgggtt gtaatgaag gtcgtctat 
gaagaaaac tgtaatgct gaggacgag atggacaac 
tccggagta aatcgcgac gattaaaaa ggggcacag 
cagttcgcg ggtctcgaa aaccacacc gaacacgta 
cggcaggaa cggcattag gaaaattat ctggaagcc 
ccagttgat ttggtcgat tcgggttaa tttgatttc 
gaggtagta agttgtgat tattacgtt gcccactgt 
gcacaggaa aaagattga actggcgag gaggttcat 
aactttgag catttttag cgtgcacat tttgacaac 
tgggtcaaa aattgacaa taataactg tgtatttca

    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