Status
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Gene information
General information
TC014254 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: 7993839..8005371
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
    		TC014254
    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
    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_05595

    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: 50.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

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

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): less than 30%
    Comment: about 25%
    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature partially not present - 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): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen not present - 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): more than 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014254 RA
      MLVETDADS GPPERPAGV LDSPILARV ERVLLRHEE 
GLERDRRYF PRPEYTQSL LSSSFGKES TATVKRGLL 
WQQRKKLFS RWKERYFIL TRDYLYCFQ RASGADRIS 
EMGQFLFKV KLVDIERVE WENKKTYSI VALVLGRDG 
KIFLRTPDG LEDWFELIE ECMLMSKER RKALRHSHD 
GKPRDNNNI TGSLGEWML PHHKLPLRQ LPTDSVRQD 
VIRRREWTP SEKDWEHPT LDNRLSLLT DIDINTYDD 
STLEAPSIT SYRMNQDVL CIQPPSLRG MGSFRSTRE 
TSNFSKRNV PNIQDIPFI KFRERSYSD IQREDRRVW 
RGLPNDNRK LH
    CDS sequence
    • >TC014254 RA
      atgttggtg gaaaccgac gccgattcc gggcccccg 
gagcggccc gccggagtc ctggactcc cccattctg 
gcgcgagtc gaaagggtg ctgctccgg cacgaggag 
ggcctggaa agggacagg aggtacttc ccaaggccc 
gagtacacg cagtctctt ctttcttcg agcttcgga 
aaggagtcg actgccacg gtcaagcgg gggctgctg 
tggcagcag cgcaagaaa ctcttcagc cgctggaag 
gagcgctac ttcatctta acgcgcgat tatttgtac 
tgttttcaa agagcttcc ggagctgat aggatatcg 
gaaatgggg cagtttctc ttcaaagtc aagctggtt 
gacattgaa cgagtcgaa tgggaaaac aagaagacg 
tatagcatc gtggctttg gtgctggga agggacggg 
aaaattttc ctgaggacg cctgacgga ttagaagac 
tggtttgag ctgattgaa gagtgcatg ctgatgagc 
aaggagagg cggaaagca ctgagacac tcacacgat 
ggaaaaccg agagataat aacaacatc acagggtcg 
ttgggagaa tggatgctt cctcatcac aaactacct 
ttgaggcaa ttacccact gacagcgta agacaggac 
gtgataaga agacgggag tggactcct agtgaaaag 
gattgggag catcctacc ctcgataac agactgtct 
cttttaact gacatcgac attaacacc tacgacgat 
agcaccctg gaagccccg tcaataact tcttatcga 
atgaatcag gatgttctg tgcatccaa cctccgtcc 
cttagaggc atgggctct tttcgttca actagagag 
acttcgaat ttctcgaaa cggaatgtt cctaatatc 
caagacata ccatttata aaatttaga gaacgttcg 
tatagcgac attcaaaga gaggatcga agagtgtgg 
cgaggtttg cccaatgat aaccgcaag ttacattag
    mRNA sequence
    • >TC014254 RA
      gaattccga aattgtttg gaccggagt ttttccggg 
cgtaaaatc gcaaattcc cggagaagt gcatcgagg 
agcgcatat cgctcctaa ccacagcca ctccaagct 
cgaaggtat tccccacag cttagtctc tttccgttc 
gctgctcac gatacatca ctcacaggc tcgccagtc 
gcgcattca cattttgaa cgtttgtgg atttgtgtg 
cgatgttgg tggaaaccg acgccgatt ccgggcccc 
cggagcggc ccgccggag tcctggact cccccattc 
tggcgcgag tcgaaaggg tgctgctcc ggcacgagg 
agggcctgg aaagggaca ggaggtact tcccaaggc 
ccgagtaca cgcagtctc ttctttctt cgagcttcg 
gaaaggagt cgactgcca cggtcaagc gggggctgc 
tgtggcagc agcgcaaga aactcttca gccgctgga 
aggagcgct acttcatct taacgcgcg attatttgt 
actgttttc aaagagctt ccggagctg ataggatat 
cggaaatgg ggcagtttc tcttcaaag tcaagctgg 
ttgacattg aacgagtcg aatgggaaa acaagaaga 
cgtatagca tcgtggctt tggtgctgg gaagggacg 
ggaaaattt tcctgagga cgcctgacg gattagaag 
actggtttg agctgattg aagagtgca tgctgatga 
gcaaggaga ggcggaaag cactgagac actcacacg 
atggaaaac cgagagata ataacaaca tcacagggt 
cgttgggag aatggatgc ttcctcatc acaaactac 
ctttgaggc aattaccca ctgacagcg taagacagg 
acgtgataa gaagacggg agtggactc ctagtgaaa 
aggattggg agcatccta ccctcgata acagactgt 
ctcttttaa ctgacatcg acattaaca cctacgacg 
atagcaccc tggaagccc cgtcaataa cttcttatc 
gaatgaatc aggatgttc tgtgcatcc aacctccgt 
cccttagag gcatgggct cttttcgtt caactagag 
agacttcga atttctcga aacggaatg ttcctaata 
tccaagaca taccattta taaaattta gagaacgtt 
cgtatagcg acattcaaa gagaggatc gaagagtgt 
ggcgaggtt tgcccaatg ataaccgca agttacatt 
agtcattca agggtgtta cgctagtca ttttcaagt 
ctttggcat cgaaattgc cattacgtt ataatgaat 
attacacaa tgtcttgat catagtaat aactcacac 
aactattta ggtttttga cattataga tattagtca 
tacgtatat ggaacagtt atcgaaata tttaatttt 
tgtgtacca tttgtcttg taacgtttg atttaatct 
gtttaagca tatagtcgt taattatat tgttttgca 
aaccaaaga atgcttcgt ttgtttatg atatgagct 
gtttatagt atttattgt taacttttc gtatttaga 
cacgcctag agacaatcg tgagatata ttgtttaga 
gttagatgt tacattttt caaaggata attgtataa 
ttgtttgaa ataaatttt gaaagccga ttcgattaa 
atcaacctt ttatttttt acatacaaa ataaaccta 
acaacatta a

    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