Status
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Gene information
General information
TC011388 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_015450233.1: 613849..615959
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
    		TC011388
    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
    {{ goGene }}
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01846

    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
    mature egg posterior protruding - Number of animals showing the phenotype: 4
    mature egg posterior colour darker - Number of animals showing the phenotype: 4
    mature egg number increased - Number of animals showing the phenotype: 4

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

    mature egg deposition irregular - 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

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

    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 8 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011388 RA
      MSYIVSPDV VKYACTCGL LKPISCLYF CRYCCELRC 
GFCVCHEVD SHFCGKCCE NLPSSEARL KKNRCGNCY 
ICPCCQQEL STRIGSKGP SNPEDPKST PKKMYYLSC 
LYCRWSSRD VGIPDQGAA TGGWPEREN VHANRLQEV 
IEGYKAFIT AQRQQKERE KKKQRGKFI SYTDRTGVT 
AAALRKRIG LPAEVPNTY YRNRPKPPE VAIAREEVE 
DFPEDLLTK ALNLMEITT IDQRLLQPD LQPTTVDKL 
FPIHKQLSI KRSLRCRSC EHNVSKPEY NPNSVKFKI 
QLFAYYHIP EVRIVTVEP LRAGKTAEL ILKFTNPTQ 
HQTVITFLP LDLTDKGGD GDREVVGET QSLNLPEKQ 
PPSLGGQPS SLLSLSSRQ PSITIKPRP IRQATNCSI 
AIPGSKVIL PPRDDAAEY DDSGETHNI QDDTKLVVW 
RKSNKAFVK LAVTPDDGL ELNTEIVAG FTMQHIYTN 
TIATTVENK EPDRHDHNV RVFLSLGNL VGSE
    CDS sequence
    • >TC011388 RA
      atgtcgtac atcgtaagc cctgatgta gtgaaatat 
gcgtgcact tgtggcctc ctcaagccc atttcgtgc 
ctttacttc tgccggtat tgttgcgag cttcggtgc 
ggcttttgc gtgtgccac gaggtcgat tcccacttt 
tgtggaaaa tgctgcgag aatctgccc tcgtccgaa 
gcccggctc aagaagaac aggtgtggc aactgctac 
atctgcccc tgttgccag caggagctc tccactagg 
attggctcg aaggggccc tccaatccg gaggacccc 
aagtccact cccaagaaa atgtactac ttgtcctgt 
ctgtactgt cgctggagc tcccgtgat gtgggcatt 
ccggaccag ggggctgcc accggcggc tggcccgag 
cgcgagaat gtgcacgcg aatcgcctc caggaggtg 
attgagggc tataaggcc ttcattacg gcacagagg 
cagcaaaag gaacgggag aagaagaag caaaggggg 
aagtttatt agctacacg gaccgtact ggggtgacg 
gccgccgcc ctgcgcaag cgcatcggg ctgccggcc 
gaagttcca aacacgtac taccggaac cggccgaag 
ccgcccgaa gtggccatc gcgcgtgag gaagttgag 
gacttcccc gaagatctc ctcaccaaa gccttaaac 
ttgatggaa atcacaaca atcgatcaa cgcctactc 
caacccgac ttgcagcca acgaccgtc gataaatta 
ttcccaatt cataagcag ctgtcgatc aagcgatcg 
ctgaggtgt cgctcgtgc gaacacaac gtcagcaaa 
cccgaatat aaccccaac agtgtcaag tttaaaatc 
cagttattt gcatattat cacattccg gaggtgcga 
attgtcaca gttgaacct ctacgtgcc ggaaaaacg 
gccgaattg attttgaaa tttacaaat ccgacgcaa 
caccaaact gtgattacg ttcctccca ttggatctg 
acagataag ggaggggat ggcgatcgg gaagtggtg 
ggggaaacg caatctttg aacctacca gagaaacag 
cccccttca ttggggggc caaccttcc agtctttta 
agtttatct tcccgtcag ccgtcaatc acgatcaag 
ccacgcccc attcgccaa gcgaccaat tgcagcatc 
gctataccg ggcagtaag gttatactg ccgccgcga 
gatgacgct gctgagtat gacgattcc ggggaaaca 
cataatatt caagatgat accaagctt gtagtttgg 
agaaaatcg aacaaggcc ttcgtcaag ttggctgtg 
actcctgat gatggtctt gaattgaat accgaaatc 
gtggccggt tttacaatg caacatatt tacacaaat 
acgattgcg acaactgtg gagaacaag gaacccgat 
agacacgac cacaatgtt agggttttt ctgagtttg 
gggaatttg gtcgggtct gaatga
    mRNA sequence
    • >TC011388 RA
      cctctagtg tcaagtaag ggggctcca agatgtcgt 
acatcgtaa gccctgatg tagtgaaat atgcgtgca 
cttgtggcc tcctcaagc ccatttcgt gcctttact 
tctgccggt attgttgcg agcttcggt gcggctttt 
gcgtgtgcc acgaggtcg attcccact tttgtggaa 
aatgctgcg agaatctgc cctcgtccg aagcccggc 
tcaagaaga acaggtgtg gcaactgct acatctgcc 
cctgttgcc agcaggagc tctccacta ggattggct 
cgaaggggc cctccaatc cggaggacc ccaagtcca 
ctcccaaga aaatgtact acttgtcct gtctgtact 
gtcgctgga gctcccgtg atgtgggca ttccggacc 
agggggctg ccaccggcg gctggcccg agcgcgaga 
atgtgcacg cgaatcgcc tccaggagg tgattgagg 
gctataagg ccttcatta cggcacaga ggcagcaaa 
aggaacggg agaagaaga agcaaaggg ggaagttta 
ttagctaca cggaccgta ctggggtga cggccgccg 
ccctgcgca agcgcatcg ggctgccgg ccgaagttc 
caaacacgt actaccgga accggccga agccgcccg 
aagtggcca tcgcgcgtg aggaagttg aggacttcc 
ccgaagatc tcctcacca aagccttaa acttgatgg 
aaatcacaa caatcgatc aacgcctac tccaacccg 
acttgcagc caacgaccg tcgataaat tattcccaa 
ttcataagc agctgtcga tcaagcgat cgctgaggt 
gtcgctcgt gcgaacaca acgtcagca aacccgaat 
ataacccca acagtgtca agtttaaaa tccagttat 
ttgcatatt atcacattc cggaggtgc gaattgtca 
cagttgaac ctctacgtg ccggaaaaa cggccgaat 
tgattttga aatttacaa atccgacgc aacaccaaa 
ctgtgatta cgttcctcc cattggatc tgacagata 
agggagggg atggcgatc gggaagtgg tgggggaaa 
cgcaatctt tgaacctac cagagaaac agccccctt 
cattggggg gccaacctt ccagtcttt taagtttat 
cttcccgtc agccgtcaa tcacgatca agccacgcc 
ccattcgcc aagcgacca attgcagca tcgctatac 
cgggcagta aggttatac tgccgccgc gagatgacg 
ctgctgagt atgacgatt ccggggaaa cacataata 
ttcaagatg ataccaagc ttgtagttt ggagaaaat 
cgaacaagg ccttcgtca agttggctg tgactcctg 
atgatggtc ttgaattga ataccgaaa tcgtggccg 
gttttacaa tgcaacata tttacacaa atacgattg 
cgacaactg tggagaaca aggaacccg atagacacg 
accacaatg ttagggttt ttctgagtt tggggaatt 
tggtcgggt ctgaatgaa tcttgtact ggtcccact 
attataagt tataaaata atgttttgt attattcac 
tcaattaat gaattgtat tattgcttc agtaacaaa 
caataaagt tatgctttt tca

    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