Status
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Gene information
General information
TC013451 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_007420.3: 9383711..9385219
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
    		TC013451
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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_05435

    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: 80.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    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: 2 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    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)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

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

    larva lethality late (L7) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013451 RA
      MESSESQLQ IRLVTKQEC FAVPDVPLA VPGSIEHNS 
LNELINQLI KENKSDFLK PKEFDFLVL GELLRVPLL 
EHLKEHNIS TEIAIDVEY IERTPAPEP QDSLLHDDW 
VSGLHCVDK WILTGCYDY SVNIWTTHG KLVTSQKEH 
KNIVKKVAW INQTNPSQG FISVSHDLT GLLWQWEPG 
TDQIKPQVV LKGHEKGID SVGVSPNCL KIATGGWDT 
NLKIWSSSF ESDDEPAHK KVRGDKNLI TRTPIHTLK 
GHKETITST SWIDNHVIC TVSMDHTIK FWDAELCGI 
KNEIVGQKA FLDSSWSSL SNTLLACSA DRHIRLYDP 
RSSEGSVVK TTFTSHTLW VSSIEWSKY DEHLFMSGG 
YDSGVKLWD SRSPKAPLY NLEGHQGQV LAVDWSNNK 
YLVSGGCDN SVHIFRNNY VF
    CDS sequence
    • >TC013451 RA
      atggaatcc agtgagtct caactgcaa attcgactg 
gttacaaaa caagaatgt tttgcggtc ccagatgtg 
cccctcgcc gttccaggt tccattgaa cacaattca 
ttaaatgaa ttgattaac caattaata aaagagaac 
aaatcagat tttctgaag cccaaagaa tttgatttt 
ttggtcctg ggtgaacta ctaagagtt ccccttctt 
gagcattta aaagaacac aatatttca actgaaata 
gctatcgat gttgaatat attgagaga actccagct 
ccagagcct caagattca cttttacac gatgactgg 
gtttcgggt ttacattgc gttgataaa tggatttta 
actggatgt tacgactac tctgtgaac atatggaca 
acgcatgga aaacttgtt acatcgcaa aaagaacat 
aaaaatatt gtaaaaaaa gtggcatgg ataaaccaa 
accaatccc tcacaaggt ttcataagt gtttctcat 
gatcttacg ggactgctg tggcagtgg gagcctggg 
acagatcag ataaaacct caagttgtg ttaaaaggt 
catgaaaaa gggatagac agtgtgggg gttagtccc 
aactgtctt aaaattgca acaggagga tgggacaca 
aacctaaag atttggtcc tcatcgttt gaaagtgac 
gacgaacct gcacacaaa aaagtaaga ggagacaaa 
aatctgatt accaggacc cccattcac acattaaaa 
ggccataaa gaaaccata acttcgact tcctggatt 
gacaaccat gtaatttgc actgtgtca atggaccat 
acgattaaa ttttgggat gctgagttg tgtggtatc 
aagaatgaa atagttggc cagaaggca tttttggat 
tcttcttgg tcttcccta tctaacaca ttattagca 
tgttcagct gatagacat attcggttg tacgaccca 
aggtcttca gagggttca gtggtcaag actactttc 
acctcacat acgctatgg gtcagttca attgaatgg 
tcaaaatac gatgaacac ctttttatg tcgggagga 
tacgattct ggtgtcaaa ttgtgggat tccagaagc 
cctaaagcc ccactttat aatttagag ggacaccaa 
gggcaagtc ctagctgta gattggtcc aataacaag 
tatctggtc tctggaggg tgcgacaat agtgtacac 
attttcaga aataattat gtgttttaa
    mRNA sequence
    • >TC013451 RA
      ccacataac cttaacttt gaaaaacac ttgagcatg 
tattaataa tcaaaaaat tagaaatta actagccat 
tttctaata ttttttaat agcgtcgcc acattttat 
aaattcagt aaagcaagt atcatttta agatggaat 
ccagtgagt ctcaactgc aaattcgac tggttacaa 
aacaagaat gttttgcgg tcccagatg tgcccctcg 
ccgttccag gttccattg aacacaatt cattaaatg 
aattgatta accaattaa taaaagaga acaaatcag 
attttctga agcccaaag aatttgatt ttttggtcc 
tgggtgaac tactaagag ttccccttc ttgagcatt 
taaaagaac acaatattt caactgaaa tagctatcg 
atgttgaat atattgaga gaactccag ctccagagc 
ctcaagatt cacttttac acgatgact gggtttcgg 
gtttacatt gcgttgata aatggattt taactggat 
gttacgact actctgtga acatatgga caacgcatg 
gaaaacttg ttacatcgc aaaaagaac ataaaaata 
ttgtaaaaa aagtggcat ggataaacc aaaccaatc 
cctcacaag gtttcataa gtgtttctc atgatctta 
cgggactgc tgtggcagt gggagcctg ggacagatc 
agataaaac ctcaagttg tgttaaaag gtcatgaaa 
aagggatag acagtgtgg gggttagtc ccaactgtc 
ttaaaattg caacaggag gatgggaca caaacctaa 
agatttggt cctcatcgt ttgaaagtg acgacgaac 
ctgcacaca aaaaagtaa gaggagaca aaaatctga 
ttaccagga cccccattc acacattaa aaggccata 
aagaaacca taacttcga cttcctgga ttgacaacc 
atgtaattt gcactgtgt caatggacc atacgatta 
aattttggg atgctgagt tgtgtggta tcaagaatg 
aaatagttg gccagaagg catttttgg attcttctt 
ggtcttccc tatctaaca cattattag catgttcag 
ctgatagac atattcggt tgtacgacc caaggtctt 
cagagggtt cagtggtca agactactt tcacctcac 
atacgctat gggtcagtt caattgaat ggtcaaaat 
acgatgaac accttttta tgtcgggag gatacgatt 
ctggtgtca aattgtggg attccagaa gccctaaag 
ccccacttt ataatttag agggacacc aagggcaag 
tcctagctg tagattggt ccaataaca agtatctgg 
tctctggag ggtgcgaca atagtgtac acattttca 
gaaataatt atgtgtttt aagtgaaaa ataaaatta 
attttaaaa a

    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