Status
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Gene information
General information
TC002130 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_007418.3: 19838947..19843550
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
    		TC002130
    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_00331

    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: 1 (3 dpi)
    Days post injection

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

    Fertility
    egg chamber number decreased - Number of animals showing the phenotype: 1

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupation delayed (still larva) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 4 (19 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    Pupal morphology
    elytra shortened - Number of animals showing the phenotype: 4

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002130 RA
      MATLEDKIL GEKLHNYCS SSEESEGDS DSEEQNKKT 
EPVDATPPE VNKWEGTSS NTGPKGVIK DWQRYKQLE 
NEKRAEDES EKIALMKKL TLTVQSALD EEREKAALE 
DPDLAELLN DDFLLNYQK QRMQEMLLQ TNHNIKFGE 
VIVLKSSGE LLDAIDKEH KSVTIVVHI YEDNVEACR 
TMNVCLKQL CKTYENVKF CSIVGSRAG MSMRFKTDG 
VPALLIYKG GQLVGNFIR LSDDLGTDF EPEDIQSFL 
VEHGMLEDK SCTPLLIQG GTDHSDSD
    CDS sequence
    • >TC002130 RA
      atggcaacg ttagaagac aagattctc ggcgaaaaa 
ttgcacaat tactgcagc agcagtgag gaaagtgag 
ggtgattcc gattctgag gaacaaaac aagaaaaca 
gaacccgtt gatgcgacg ccccctgaa gtcaataaa 
tgggagggg acgtcctcc aacacgggc cccaaagga 
gtgatcaag gactggcaa aggtacaaa caactggag 
aatgaaaaa cgggcggag gacgaaagc gagaaaatc 
gccctcatg aagaaactg actttgacg gttcaatcg 
gccttggat gaagagcgg gaaaaagcg gctttggaa 
gacccagat ttggccgaa ttgttgaat gatgatttc 
ttgttaaac taccagaag caaaggatg caggaaatg 
ctgcttcag acaaaccat aacatcaaa tttggtgag 
gtaatagtt ttaaaaagc agtggtgaa ctcctcgac 
gcaattgac aaggagcat aaatcggtg actatcgtt 
gtacacatt tacgaagac aatgtggaa gcctgtcgc 
acaatgaac gtgtgctta aaacagctt tgcaaaact 
tacgaaaat gtgaaattc tgttcaatt gttggctca 
agggctggg atgagtatg cggtttaaa acagacgga 
gttccggct ttacttatc tataaaggg ggacaactt 
gtcgggaat tttattcga ttgtcggat gatcttggc 
actgatttt gagcctgaa gacattcag agtttttta 
gttgaacat ggaatgctg gaagacaag agttgtact 
ccgttgctc attcaaggt ggaacggat cacagtgac 
agtgattga
    mRNA sequence
    • >TC002130 RA
      gctgtcttg gcaccagat gcagctttt ttgggtggc 
attttgcaa ttttatcac aactaacac aaaattcaa 
cggtatttc aatgtgcgc caaaaaacg ccgagtttt 
tgacagacg aaaaaaagc gctgccaac acaccgact 
agtaaatgt tcaagaaaa cgagcggtt ttttgaaaa 
attaaactt tttaatgaa tgtagtcaa actaaatac 
gatttttaa ccgagttcg agtcatcag tcattaatt 
aaagtaaac ttctttact taactatgg tttttggtc 
atttttagt gtgactttg acaattgtc acacttgtc 
aaaatttta gggttagag tttttgttt atttgaggc 
ctcgttcgt tttcccgtt ccgtttatt tttgagcga 
acatttgtt gttcctgtc atattgtgc attaaattc 
gtccttgtg ctattctta aattaggcg aaattactt 
gatctttca attaacaac gttgatcga aaatggcaa 
cgttagaag acaagattc tcggcgaaa aattgcaca 
attactgca gcagcagtg aggaaagtg agggtgatt 
ccgattctg aggaacaaa acaagaaaa cagaacccg 
ttgatgcga cgccccctg aagtcaata aatgggagg 
ggacgtcct ccaacacgg gccccaaag gagtgatca 
aggactggc aaaggtaca aacaactgg agaatgaaa 
aacgggcgg aggacgaaa gcgagaaaa tcgccctca 
tgaagaaac tgactttga cggttcaat cggccttgg 
atgaagagc gggaaaaag cggctttgg aagacccag 
atttggccg aattgttga atgatgatt tcttgttaa 
actaccaga agcaaagga tgcaggaaa tgctgcttc 
agacaaacc ataacatca aatttggtg aggtaatag 
ttttaaaaa gcagtggtg aactcctcg acgcaattg 
acaaggagc ataaatcgg tgactatcg ttgtacaca 
tttacgaag acaatgtgg aagcctgtc gcacaatga 
acgtgtgct taaaacagc tttgcaaaa cttacgaaa 
atgtgaaat tctgttcaa ttgttggct caagggctg 
ggatgagta tgcggttta aaacagacg gagttccgg 
ctttactta tctataaag ggggacaac ttgtcggga 
attttattc gattgtcgg atgatcttg gcactgatt 
ttgagcctg aagacattc agagttttt tagttgaac 
atggaatgc tggaagaca agagttgta ctccgttgc 
tcattcaag gtggaacgg atcacagtg acagtgatt 
gagtattag tgcaagtaa agtattggt gctaagacc 
ttaaatgta ttgctttat tggtttccg gaacgattt 
aacgtaacc taacaccaa acaaatcag cgattaaat 
ttatctaag gctaaatcg ttccagaaa ccgttatgt 
tatttccag gtgttttct aatctatta aattttgtc 
tttgatctc atgagaggc tattacgtt gtagaaatg 
cattgaatg catttttca tctactttt tattaaatt 
tgtccttga ttttgtcat attaccaca atactaata 
ataataaag ttataaacc aatt

    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