Status
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Gene information
General information
TC003392 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: 3990815..3992710
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
    		TC003392
    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
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    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_00563

    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: 70.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 7 (9 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 early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

    remarks: animals lost,
    Pupal morphology
    remarks: animals lost,
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003392 RA
      MNMRDKEKY IENFHFPFC DESEKYEKI AKIGQGTFG 
EVFKARDKS NPKKFVAMK KVLMDNEKE GFPITALRE 
IRILQLLKH ENVVNLIEI CQTKAAYRN RYKSTFYLV 
FDFCEHDLA GLLSNVHVK FSLGEIKKV VQQLFNGLY 
YIHSNKILH RDMKAANVL ITKNGVLKL ADFGLARAF 
STNKNGLPN RFTNRVVTL WYRPPELLL GERNYGPPV 
DLWGAGCIM AEMWTRSPI MQGNSEQQQ LTLISQLCG 
TICPQVWPG VENLELYKK MELPVQKRK VKERLKHYM 
KDPYACDLL DKLLVLDPA KRADADTAL NHDFFWTDP 
MPCDLSKML ATHTQSMFE YLAPPRRPT QMRHHSLPR 
PTTSAVQDS GYQDRVF
    CDS sequence
    • >TC003392 RA
      atgaatatg cgagataaa gagaaatac attgaaaat 
ttccatttc ccgttctgt gatgaatcg gaaaaatac 
gagaaaatt gcgaaaatt ggccaagga acgttcggt 
gaagtgttc aaggcgagg gacaaaagt aatcctaag 
aaattcgta gcaatgaaa aaagtgtta atggacaat 
gaaaaagag ggctttcca atcacagct ttgcgcgaa 
atacgaatt ttgcaacta ttgaaacac gaaaacgtt 
gttaatctt atagaaata tgccaaact aaggctgca 
taccgcaac agatacaag tcaacgttt tatttagtg 
ttcgatttt tgtgaacac gacttggcc gggttgttg 
tcaaacgtc cacgttaag tttagtcta ggagagata 
aaaaaagta gtgcaacaa ttatttaac ggtctgtat 
tacatacac agcaacaaa attcttcat agagatatg 
aaagccgcc aatgtgtta attacaaag aatggtgtt 
ttaaaattg gccgatttt ggcctagct cgtgcattt 
agtaccaat aagaatgga ctgccaaat agatttaca 
aatcgtgtc gttacgtta tggtatagg cctccagaa 
ctgttgtta ggtgaaaga aactacggc cccccagtt 
gatttgtgg ggggctggc tgtattatg gccgaaatg 
tggacaagg tcccccata atgcagggc aacagcgag 
caacaacag ctcactctg atttctcaa ctttgtggc 
accatctgc ccccaggtc tggccagga gttgagaat 
ctggagttg tacaagaag atggaactc cccgtccaa 
aagcgaaaa gtgaaagag aggctgaag cactacatg 
aaagacccg tacgcttgt gatttactc gataagctg 
ttggtcctc gaccccgcc aaacgggcc gatgctgat 
acggccctc aaccatgac tttttctgg actgaccca 
atgccatgc gatttgagc aaaatgtta gccactcac 
actcaaagc atgtttgaa tatttggct ccgccgaga 
agaccgaca caaatgagg catcattcg ttgccaaga 
ccgacaact tccgctgtg caagacagc ggataccaa 
gatagggtt ttttag
    mRNA sequence
    • >TC003392 RA
      ctattgtca tatgtcatt cctggaggt tatgttttg 
attgtgtgt gtttttagt gcaattgtg attcagaaa 
aaagcagcg gaaatgcat ttaagtact ttaaatgtg 
gtgttttaa accttcaca cgtttcttc ttaattgac 
gaaaaactg tgctaaata ttgccttgt ctaaagctt 
gtgcaacgt tagacaaga ggcgatttt gcaatcatg 
aatatgcga gataaagag aaatacatt gaaaatttc 
catttcccg ttctgtgat gaatcggaa aaatacgag 
aaaattgcg aaaattggc caaggaacg ttcggtgaa 
gtgttcaag gcgagggac aaaagtaat cctaagaaa 
ttcgtagca atgaaaaaa gtgttaatg gacaatgaa 
aaagagggc tttccaatc acagctttg cgcgaaata 
cgaattttg caactattg aaacacgaa aacgttgtt 
aatcttata gaaatatgc caaactaag gctgcatac 
cgcaacaga tacaagtca acgttttat ttagtgttc 
gatttttgt gaacacgac ttggccggg ttgttgtca 
aacgtccac gttaagttt agtctagga gagataaaa 
aaagtagtg caacaatta tttaacggt ctgtattac 
atacacagc aacaaaatt cttcataga gatatgaaa 
gccgccaat gtgttaatt acaaagaat ggtgtttta 
aaattggcc gattttggc ctagctcgt gcatttagt 
accaataag aatggactg ccaaataga tttacaaat 
cgtgtcgtt acgttatgg tataggcct ccagaactg 
ttgttaggt gaaagaaac tacggcccc ccagttgat 
ttgtggggg gctggctgt attatggcc gaaatgtgg 
acaaggtcc cccataatg cagggcaac agcgagcaa 
caacagctc actctgatt tctcaactt tgtggcacc 
atctgcccc caggtctgg ccaggagtt gagaatctg 
gagttgtac aagaagatg gaactcccc gtccaaaag 
cgaaaagtg aaagagagg ctgaagcac tacatgaaa 
gacccgtac gcttgtgat ttactcgat aagctgttg 
gtcctcgac cccgccaaa cgggccgat gctgatacg 
gccctcaac catgacttt ttctggact gacccaatg 
ccatgcgat ttgagcaaa atgttagcc actcacact 
caaagcatg tttgaatat ttggctccg ccgagaaga 
ccgacacaa atgaggcat cattcgttg ccaagaccg 
acaacttcc gctgtgcaa gacagcgga taccaagat 
agggttttt tagttgtaa gaaacacgg acattgtgg 
ttattttca agtaatgtg gaaattgtt tctaaagtg 
gaaacataa ctgaaggtt tttcgggaa ccctaaaat 
ttgatgtta ctttttatt atctttttg taacgttta 
atatgatgt tacttagtt aacatagcg aataaactg 
tgtaaaaac gc

    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