Status
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Gene information
General information
TC033784
Former TC numbers

If one gene is splitted or genes are merged, the original TC numbers are listed. One listed former TC number indicates the previous gene has be splitted, serveral former TC number represents a merged gene.

TC009990 		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_007422.5: 10662411..10667633
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
    		TC033784
    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_04738

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     larva segment median partiallydecreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larva appendages partially shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC033784 RA
      MCKCLQYCL ESCYWHLIE KRFCYDESI ALYEVPEKE 
EKNNNFFDN MAFYDSVSV IAGRAVVTI DPLPEEKPI 
VQQPTRRLR WENEQLGQN RWEKLSKSV PAIFDAAKK 
EEEREKIEA EKRAEDEGN SGQNPEPEP RDSVDKPKL 
ETLKPENLV PEIRRRSLA ERRLSKSLY LKIDQPKEI 
PIIRQQSMP KFYVDTPEE RDQQHTSMF RTPSSALAS 
PVPKSSAFV YDLYSVVQM ERERVKHMD TQVPVHRKE 
SDRSSRLLQ IRDKIKLRR VKSSLGTPV TNLPHSHQH 
I
    CDS sequence
    • >TC033784 RA
      atgtgcaaa tgcctccag tattgcttg gaatcatgc 
tactggcac ctcatagaa aagcgcttt tgctacgac 
gaaagcata gctctgtac gaagtcccc gaaaaagaa 
gaaaaaaac aacaacttc ttcgacaat atggcgttt 
tatgatagc gtttctgtg atagctgga cgagcggtt 
gtgacgatc gaccctttg cccgaagaa aaacccatc 
gtgcagcag cccaccagg agactgcgc tgggaaaac 
gagcagttg gggcagaac aggtgggaa aagctctcg 
aaaagcgtg cccgccatc ttcgacgcc gccaaaaag 
gaggaggag agggagaaa atcgaggca gaaaagagg 
gcagaagac gaaggcaac tccggtcag aacccggag 
cctgagccc cgcgacagt gtcgacaaa ccgaaactg 
gaaaccttg aagcccgag aatctcgtc ccggaaatc 
cggcgcagg tcattggca gaaagacgt ttatcgaaa 
agtctgtac ttgaaaatc gaccagccg aaggaaatc 
cccataatc aggcaacaa tccatgccc aaattttac 
gtagacacg cccgaggaa agggaccaa cagcacacg 
tccatgttc aggactccc agttcggct ttggccagt 
ccagtgccc aaatcctcg gctttcgtc tacgacctg 
tactcggtg gttcaaatg gagagagaa agagtgaaa 
cacatggac acccaggtt cctgtgcac cggaaggag 
tccgacagg tcttccagg cttttgcaa attagggac 
aagatcaag ctcaggagg gttaagagc agtttgggg 
acgccagtc actaatctc ccacacagt catcagcat 
atttaa
    mRNA sequence
    • >TC033784 RA
      gtgaagtac aagtgtgca aagtgctta aaaataccg 
atattgtgc taaattttg atcaatcaa acagatgag 
agactgaac tgaaagaaa gtctccaga accccagca 
aaaacagta caactattt aggtcgttt aaaacaggt 
cgaaaaatt ttttcgtag aatatcact tgaagttgc 
atgtcgtta actgaaaat tcgctggtc ttcttttga 
taatgatgc tcaaatttg actcctcaa agcttgaaa 
ctttaatgc tgtttatct acttaacca tcagctaat 
ctgataaaa ttcccagaa tttgttgcg taaacaagt 
caattattc ggtttcttt catcaattt gttgcctcg 
attgaagta aagcttcca aaagcagaa gccttcaag 
ctgtgtttt tctaaattg ctaccatgg tacaggtga 
atagcacgg gtttgtagt gaaactgcc attactaca 
agaaaacaa ggcaaacct cagccagtg aaaggaata 
agttcaatg tcagaatta tataggaac attgcaatt 
aagtcagag catgagtta taggagctg aatcagttt 
gtgtctgac gttggcgcg attcgttca cgttgaaaa 
gggtttcga aagttgcga gtgaagagt ttggaaaat 
attgtgatt atcacgtgc agtgaaacc aattaacga 
ttcaaatat cacaccatt acatcattt catatgaga 
ctgtgacac agtagatca agtgcaggt tgtgctgga 
tgaaattaa tccccaaaa attattttt taaataaaa 
gtaaatcaa tgattccaa atttcagtg atggtcacc 
acatggtga tataactag gttatcagg acgaggaaa 
ggtcattaa cttccgtat cccacctcc tcgttttga 
ataaattaa aatttttct ttcaagacc agttgttcg 
agacacttt tagttctta tcatctaga aattacgaa 
agttttaat tttatcaaa gcaatttta cagtaaaat 
ttttgtaat actattttg aaattaatt aataattat 
taacaacag caaacttgt gataactgt taccaaaca 
tttggttat tggaaaaaa acccaagcg cacctgcag 
taaagttca gttgatgtc atttttcag aaatcgtaa 
ataattcgt cgataaatt aattgtggc actgtgacg 
ctaattaat ttttttatt ttatcgctc catgaacag 
gtgtaaaaa aatgtttca ctgtaattg tacaatttt 
ttaaattta ttaaagctt gattagcgt cgacgtttg 
ttttcttcc aaaaaaaac taatttatt atacaacaa 
agtgtttat ccagtgttg gagaaattt ttccaatat 
cctgcttca gaaaaaaag gataaacac gaaaatctt 
tgtttgttt aaaaataat caaactttg tgaacatca 
aagcattta aaaattcta aaaatctct aaataaaaa 
caagttata actagacta ctactacta ctgtaaaat 
taatactaa cagcaacaa attcaaagc gtggcgtga 
cgataagcc cacaattaa aaataccat atcgaaggt 
gaagtaatg gtgtgttat aataatttc gtttttggt 
atttagtaa agatgacat cgattgtaa aatggacaa 
ttacacagt tatatcaac attatcgtc atatctgtt 
aatcacctt tattatttc caagtgata gcgttgaaa 
ataatgaca attatggtg tcttggtga tgcggagtt 
gtgtttggt gaagcagaa tgtgcaaat gcctccagt 
attgcttgg aatcatgct actggcacc tcatagaaa 
agcgctttt gctacgacg aaagcatag ctctgtacg 
aagtccccg aaaaagaag aaaaaaaca acaacttct 
tcgacaata tggcgtttt atgatagcg tttctgtga 
tagctggac gagcggttg tgacgatcg accctttgc 
ccgaagaaa aacccatcg tgcagcagc ccaccagga 
gactgcgct gggaaaacg agcagttgg ggcagaaca 
ggtgggaaa agctctcga aaagcgtgc ccgccatct 
tcgacgccg ccaaaaagg aggaggaga gggagaaaa 
tcgaggcag aaaagaggg cagaagacg aaggcaact 
ccggtcaga acccggagc ctgagcccc gcgacagtg 
tcgacaaac cgaaactgg aaaccttga agcccgaga 
atctcgtcc cggaaatcc ggcgcaggt cattggcag 
aaagacgtt tatcgaaaa gtctgtact tgaaaatcg 
accagccga aggaaatcc ccataatca ggcaacaat 
ccatgccca aattttacg tagacacgc ccgaggaaa 
gggaccaac agcacacgt ccatgttca ggactccca 
gttcggctt tggccagtc cagtgccca aatcctcgg 
ctttcgtct acgacctgt actcggtgg ttcaaatgg 
agagagaaa gagtgaaac acatggaca cccaggttc 
ctgtgcacc ggaaggagt ccgacaggt cttccaggc 
ttttgcaaa ttagggaca agatcaagc tcaggaggg 
ttaagagca gtttgggga cgccagtca ctaatctcc 
cacacagtc atcagcata tttaaaaag tgttgtatt 
ttattgtac ataataaaa gttttacta acag

    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