Status
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Gene information
General information
TC010394 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: 7892743..7898183
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
    		TC010394
    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_01679

    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

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: - Number of animals showing the phenotype: 4
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): less than 30%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 70.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 6 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection

    Fertility
    egg production: number <50% of expected -
    Comment: No phenotype!
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010394 RA
      MAPKESENG VKGFQMRQQ VHRTKWETF QYAIYNPST 
KEFLGRTGK NWGQLLIFY FIFYVVLAA LFAICMQGL 
LATLDDKEP KWQLERSLI GTNPGLGFR PISERTEEG 
SLIWYDQKN ETTIKKWVN LIDKFLQPY LKEQNGKNF 
ERCDFDKPA NDSKVCEVN LDKFGDCSK DNSYGFNSS 
SPCIFLKLN KIFGWVPEY YTNATEEMR KYDPDFAKF 
VATNGADHQ VWVSCQGEK PVDKENVGG FRYFPSQGF 
PSYYFPYKN VDNYLSPLV AVQVLNTAP NVIISIECR 
AWAQNIKYS SSNLQREGS VRFEILRD
    CDS sequence
    • >TC010394 RA
      atggctccg aaagagagt gaaaatggt gtgaaaggt 
tttcaaatg cggcaacaa gtccacaga actaaatgg 
gaaactttt caatacgca atctataat ccttcaact 
aaagagttt ctcggaaga acggggaaa aactggggc 
caactcttg atcttctat tttatattt tacgtggta 
ctggctgca ctatttgca atttgcatg caaggccta 
ttggccact ctcgacgac aaagagccc aaatggcag 
ttagagcgc agtctgatt ggcactaac ccaggttta 
gggttcagg ccgatatct gagcggacg gaggaaggt 
tccttgata tggtacgac cagaagaac gaaaccact 
atcaaaaag tgggtgaac ctcatcgat aaatttcta 
caaccgtat ttgaaggaa cagaacggc aagaacttc 
gaaagatgc gactttgat aaacctgcc aatgattct 
aaagtgtgt gaagtgaac ctggacaaa tttggcgat 
tgttcgaag gacaattcg tacgggttc aacagttcc 
tcaccttgt attttccta aagttgaat aaaatattt 
ggctgggta ccggagtac tacacgaat gccaccgag 
gaaatgcga aagtatgac ccggacttt gccaaattc 
gtggcaacc aatggggct gatcaccag gtttgggtc 
agctgtcag ggcgagaaa cccgtggac aaggagaat 
gtgggaggg ttcaggtac ttcccaagc cagggtttc 
ccctcgtat tacttcccc tataaaaat gtggacaac 
tacttgagt cctttggtc gcagttcaa gttttaaac 
actgccccc aacgttatc atcagtata gagtgtcga 
gcttgggcc caaaacatc aagtacagt agcagcaat 
ttgcaacga gagggatcg gtccgtttt gagattttg 
cgagattag
    mRNA sequence
    • >TC010394 RA
      acagcggac aggctgaag gctaaaaca ccgactcaa 
cttgctcaa cctaaatcc actttagtt gctgtgtgc 
agcgtcagt gtgatagga gttggtggc tcggcggag 
tggtcgtgg tgtgcaagt tctacgtgt acaagaggt 
tcacggaca gtcaaagtt acaaatatt gcataaatt 
agccaagtt ctgaataaa taaatggct ccgaaagag 
agtgaaaat ggtgtgaaa ggttttcaa atgcggcaa 
caagtccac agaactaaa tgggaaact tttcaatac 
gcaatctat aatccttca actaaagag tttctcgga 
agaacgggg aaaaactgg ggccaactc ttgatcttc 
tattttata ttttacgtg gtactggct gcactattt 
gcaatttgc atgcaaggc ctattggcc actctcgac 
gacaaagag cccaaatgg cagttagag cgcagtctg 
attggcact aacccaggt ttagggttc aggccgata 
tctgagcgg acggaggaa ggttccttg atatggtac 
gaccagaag aacgaaacc actatcaaa aagtgggtg 
aacctcatc gataaattt ctacaaccg tatttgaag 
gaacagaac ggcaagaac ttcgaaaga tgcgacttt 
gataaacct gccaatgat tctaaagtg tgtgaagtg 
aacctggac aaatttggc gattgttcg aaggacaat 
tcgtacggg ttcaacagt tcctcacct tgtattttc 
ctaaagttg aataaaata tttggctgg gtaccggag 
tactacacg aatgccacc gaggaaatg cgaaagtat 
gacccggac tttgccaaa ttcgtggca accaatggg 
gctgatcac caggtttgg gtcagctgt cagggcgag 
aaacccgtg gacaaggag aatgtggga gggttcagg 
tacttccca agccagggt ttcccctcg tattacttc 
ccctataaa aatgtggac aactacttg agtcctttg 
gtcgcagtt caagtttta aacactgcc cccaacgtt 
atcatcagt atagagtgt cgagcttgg gcccaaaac 
atcaagtac agtagcagc aatttgcaa cgagaggga 
tcggtccgt tttgagatt ttgcgagat tagtttgga 
acgatactt tggcgtagt acttattat gttgtttcg 
gttattttg tttacgttg ataaaatta attgattat 
gcttataac tgttgatca atgttttcg tttttgtgt 
tacactgta cttatcttt aagttattt aataacgat 
gtgtacgct ttagaacaa ttcgcttta actaaggat 
aatatctct agccagtgc ctcgtgcct tgtggaaaa 
tcaatctat ttttaaaac taggtagtt cccctctta 
agtacaaaa cgtgagagt ttgttagtg aatcttatt 
tttgtagcc acagcgata ttacgatcg aatctttgt 
ttattttct tattgtgat gtttcgtgc tcattacag 
cggtctgta gttaatttt ttcgtaatc ttttagttt 
gtaagtgtg gagttgcat ttggaaata cgttgtagc 
agttgaggt ttttatgta caaaagttt tgccataca 
tgcagacgt ttattgtag ttaaaaacg cataaataa 
aattaaatt ttgaatctc aagcagcaa gaaataaaa 
gaaaagaat

    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