Status
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Gene information
General information
TC002993 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: 5158413..5161725
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
    		TC002993
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00495

    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: 88.89% (includes death as pupa, adult)

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

    adult lethality immediately after eclosion - Number of animals showing the phenotype: 1 (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: 3 (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: 100.0% (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: 10 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002993 RA
      MTNTNVDDL TSALQGTRV SPTGVTFAG QSLKLDTVD 
DAKSVIEEI EKCTNLQFL NLEGNTLGV EASKGIAKA 
LEKHPEFKR ALWKDMFTG RMKTEIPKA LEFLGSGLV 
TAGARLTEL DMSDNAFGP IGVEGLAAL LRSSSCYAL 
EELRLNNNG LGITGGKLL ASALTDCYN SSKETGKPL 
QLKVFIAGR NRLENEGAK ALAEVFKMI GTLEEIAMP 
QNGIYHVGI SALSEAFTQ NKNLQILNL NDNTIGEKG 
AEAIAKALP HLQQLKEIN FGDCLLKTA GAISLANVL 
KTGHANLEE LTLGHNEIR LKGGLQLVK AMANKSKLK 
VLNLNGNQF GEDGRKQIE TEIKQIGKL NSLGSLSGD 
ESEDSEEET SEEVSHTES DMEEEIIEP KTATDFLNS 
PTEEIFIAL GDARNELIL REAKKGDDI DVNTFIPVL 
MKVASLANS SKENVSKLA LSCSERLYK ELFTWSDKT 
NNSCLVNNT ILIHLGLIK AEDKKFKPT WNLDACAKA 
LRSVMDKNY VTEITKNTF TVFLQKDKS GSR
    CDS sequence
    • >TC002993 RA
      atgacaaat accaatgta gacgacctt acaagtgcc 
ttacaaggc actcgtgtg agccccact ggggtcacc 
tttgccggc cagtcttta aaacttgat actgttgat 
gacgcaaaa agcgtaatt gaagagata gaaaaatgc 
accaacctc caattttta aacttggaa ggcaatact 
ttgggagtt gaagcgtcc aaaggcatt gccaaagca 
ttggaaaaa catcccgag tttaagaga gcgctatgg 
aaggacatg tttacgggc agaatgaaa acagaaata 
ccgaaagct ttggaattt cttggtagt ggtttagta 
acggcaggt gcccgcttg actgaactg gacatgagt 
gacaatgct ttcggccca attggtgtc gaaggactt 
gctgctctt ttgagaagc tcctcatgc tatgcttta 
gaagaactc aggttaaat aataacggc ctaggcatc 
actggtggt aaattgtta gcgtcagcc ctaacagac 
tgctataac tctagtaaa gaaacggga aaaccactc 
cagctcaag gtttttatc gctggaaga aaccgactt 
gagaatgaa ggtgcaaaa gcacttgct gaggttttc 
aagatgatt ggtacactt gaagaaata gcaatgccc 
cagaatggt atttaccac gttggcata tcggcacta 
tctgaggct tttacccaa aataaaaat ctgcaaatt 
ttaaacttg aatgacaat acgattggt gaaaagggg 
gctgaggcc attgctaaa gccctccca cacttgcaa 
cagttgaaa gaaatcaat tttggcgac tgtttgctg 
aaaactgcc ggagctatt tctctagca aatgtttta 
aaaactggt catgccaac ttggaggag ttaacactt 
gggcacaac gaaattcgc ctgaaaggg gggcttcag 
ttggttaaa gccatggcg aataaaagt aaattgaaa 
gtgttaaat ttgaacgga aatcagttt ggggaagac 
ggtcgtaaa caaattgaa accgaaatt aaacaaata 
ggcaaatta aattccttg ggaagttta agcggggat 
gagtctgag gacagtgag gaggaaacc agtgaagaa 
gtgtcgcac actgagagt gacatggag gaggaaatc 
attgagcca aaaacagcc accgatttt ctgaattcg 
ccaactgag gaaattttt attgcactt ggtgatgcc 
agaaatgag ctgatttta agagaagct aaaaaaggt 
gacgatatt gatgtcaac acttttatt cccgtttta 
atgaaagtc gcgtctctt gccaacagc agcaaagaa 
aacgtctct aaattggcg ctttcttgc tcggaaagg 
ttgtacaaa gaactgttc acatggtct gacaaaacg 
aacaattct tgtctggtg aacaacaca attttgata 
catttaggc ttaataaag gctgaagat aaaaaattt 
aagccaacg tggaacttg gacgcttgt gccaaggcg 
ctgaggagc gttatggac aaaaattac gtcacggaa 
attaccaaa aataccttc actgtgttt ttacaaaaa 
gataaaagt ggaagccga tga
    mRNA sequence
    • >TC002993 RA
      tgaatatct gaaccaact ttaaaaaat tccaacggc 
ttgacacgc gtgagcgat tgtaattta ttaaataat 
agttgtagt attgtgtaa ataataaaa atgacaaat 
accaatgta gacgacctt acaagtgcc ttacaaggc 
actcgtgtg agccccact ggggtcacc tttgccggc 
cagtcttta aaacttgat actgttgat gacgcaaaa 
agcgtaatt gaagagata gaaaaatgc accaacctc 
caattttta aacttggaa ggcaatact ttgggagtt 
gaagcgtcc aaaggcatt gccaaagca ttggaaaaa 
catcccgag tttaagaga gcgctatgg aaggacatg 
tttacgggc agaatgaaa acagaaata ccgaaagct 
ttggaattt cttggtagt ggtttagta acggcaggt 
gcccgcttg actgaactg gacatgagt gacaatgct 
ttcggccca attggtgtc gaaggactt gctgctctt 
ttgagaagc tcctcatgc tatgcttta gaagaactc 
aggttaaat aataacggc ctaggcatc actggtggt 
aaattgtta gcgtcagcc ctaacagac tgctataac 
tctagtaaa gaaacggga aaaccactc cagctcaag 
gtttttatc gctggaaga aaccgactt gagaatgaa 
ggtgcaaaa gcacttgct gaggttttc aagatgatt 
ggtacactt gaagaaata gcaatgccc cagaatggt 
atttaccac gttggcata tcggcacta tctgaggct 
tttacccaa aataaaaat ctgcaaatt ttaaacttg 
aatgacaat acgattggt gaaaagggg gctgaggcc 
attgctaaa gccctccca cacttgcaa cagttgaaa 
gaaatcaat tttggcgac tgtttgctg aaaactgcc 
ggagctatt tctctagca aatgtttta aaaactggt 
catgccaac ttggaggag ttaacactt gggcacaac 
gaaattcgc ctgaaaggg gggcttcag ttggttaaa 
gccatggcg aataaaagt aaattgaaa gtgttaaat 
ttgaacgga aatcagttt ggggaagac ggtcgtaaa 
caaattgaa accgaaatt aaacaaata ggcaaatta 
aattccttg ggaagttta agcggggat gagtctgag 
gacagtgag gaggaaacc agtgaagaa gtgtcgcac 
actgagagt gacatggag gaggaaatc attgagcca 
aaaacagcc accgatttt ctgaattcg ccaactgag 
gaaattttt attgcactt ggtgatgcc agaaatgag 
ctgatttta agagaagct aaaaaaggt gacgatatt 
gatgtcaac acttttatt cccgtttta atgaaagtc 
gcgtctctt gccaacagc agcaaagaa aacgtctct 
aaattggcg ctttcttgc tcggaaagg ttgtacaaa 
gaactgttc acatggtct gacaaaacg aacaattct 
tgtctggtg aacaacaca attttgata catttaggc 
ttaataaag gctgaagat aaaaaattt aagccaacg 
tggaacttg gacgcttgt gccaaggcg ctgaggagc 
gttatggac aaaaattac gtcacggaa attaccaaa 
aataccttc actgtgttt ttacaaaaa gataaaagt 
ggaagccga tgatcgtgc tttaatatt tttaactga 
attaaaaac tgccaaaaa tggatgtgt atctcatag 
tatagacaa caaataaac acatttccc aaattacaa 
aatttattt aatcattca aaacaatca gttctctaa 
aacaagact aaattattt tccactatg tgtaaactt 
tcattgagg agcggatgc gtttcctgc agatggggc 
actgcccac tgtagcgca tcagtctgg gggtacaat 
cgtcacaca aacataagt gtcgacaag gcaaaacta 
acacacatt tagagttat cctgacaga ctacacaat 
aaccctcgt ttttttcgt cttcattat ttgtactca 
gtggtttac attctatta cttgtctag aactatgtt 
ttaaagcaa tacgcgaca agaaacgta aagttgcca 
ctttcacat gattgtact tcagtctta aagcggtaa 
aaaacgaag acactatgt ttctgaaat aggagaata 
ggacagaat agaactggg aaaaaatgt acaagaaac 
ataacccga ctatcaaac ctatgagcg attctagcg 
gtacgtctg ttacaaagt ggtaacaac tgtaaattg 
agtttaaaa ttaacttat aaactagcg taacattgt 
tacaaatgc tgtctaaga tgtaaacac acaaacttt 
tcaagtaat tgtacgtca gaggcccca gagacagta 
cagattttg gtacaaaga ctatgataa accacactc 
cgtcaccaa acagtataa caacttgct tcataatga 
caaaaatgt gtttaactg cgctcacta ttgcgagta 
ttccattta taggagcag tgcaaactc cagaaagcc 
attttaaga caccagtta gttgttggc aatagttga 
gtttttcag ccagccatt caaaaacgt agaccacac 
tttctgtta gacaatgaa gacggtgga tcacatctt 
ggagaaata tggtaaagt cttccaaaa ttaccgtca 
acagacaaa atagcttgt ttatgaacg atccggccg 
tcgtcagaa gaaaagcca aacttgtga caataaatt 
gccccgttt tcacactga tgtaaaacg tgtacgtaa 
ttgccgcct ttaaagtgg tgataacgg ccaacattg 
tgcaaaaac ttttctcat cgtaacttt tccaaaaac 
ttgaaagtt cttggtttg taggttaga aatttgaat 
ttgatcaag ggttttgat tttgacaaa accaaagtc 
actaacgtg ggagcgtcg tgtacaagg gacgaataa 
aaagtttac taccgt

    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