Status
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Gene information
General information
TC012853 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_007424.3: 15608717..15610761
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
    		TC012853
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09534

    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: 30.0% (includes death as pupa, adult)

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

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    head capsule shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    head shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax 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%
    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012853 RA
      MLVGHLIIL ISTTTLGFP VTNPKIPSV KVLEFLKNF 
GYIEGDDDT FGALYTENG ISETIKNVQ KFGDLPQTG 
VLDNATLAL MATPRCGNA DIIRNKRSK RYVLGSEGW 
GKRTISYFI ANWSPKLGQ ASVSRNIEL ALKTWGKYG 
HLKFEKRQN PDADIIVAF GSGYHGDTS PFDGPGNIL 
AHAFFPNEG SDGFGGDIH FDADENWVD GNGTDGTEF 
VMVALHELG HSLGLAHSP VSGSVMFPY YRGLDGNEK 
ELQLGYDDI LGMYELYIR RNIAEEAPT SVSPTSTSV 
ETSTGVSPT ISTSVETST GVSPTISTS VETSTFGVS 
SVETSTPVV VYHGDDESV ETHKNHDDT HGIPSTNSP 
SLPNICDAS FDAVAVLRD QIFIFKEQY LWRLDDLSR 
IVPGYPISI SQMFPDLPK SVKKVDAAY ERPDGMIVL 
FSGDKFWVY DGKKFIEGS PRPLSDYGL PDTLDKIDA 
VQTWARNGK TYFYKDEIF WRYNETEGR MDEGYPKHM 
KRWRGVPHH LDAATTFRG ITYFFKDKL YWNVG
    CDS sequence
    • >TC012853 RA
      atgcttgtg ggccactta atcatttta atttccaca 
acaactctc ggattccca gttacgaac ccgaaaata 
ccgtcagtg aaagtcttg gaattttta aaaaacttt 
ggctatatc gaaggtgac gatgacact tttggcgcc 
ctttacacc gaaaacggc atttccgaa acgatcaaa 
aacgtgcaa aaattcggg gatttaccc caaactggc 
gtcttggac aatgcaaca cttgcgttg atggcaact 
ccacggtgc ggcaacgcc gacattatc aggaacaaa 
cgctcgaaa cgttacgtt ttgggctcc gaagggtgg 
ggaaaacgc accatttct tattttatc gctaactgg 
tccccaaag ctgggtcaa gcctcagtg tcccgaaac 
atcgaactg gctctgaaa acttggggg aagtacggg 
cacttaaaa ttcgaaaaa cgccaaaac ccggatgcc 
gacattatt gtggcgttt ggtagcggg taccatggt 
gataccagc ccgtttgat ggtcctggt aatatccta 
gcccatgcc tttttcccc aatgagggt tcggatggg 
ttcggtggt gatattcac ttcgatgct gatgaaaat 
tgggttgat ggtaatggc acagatggg acggaattc 
gtaatggtt gcgttacat gagctggga cattcgctg 
ggtttggcc cattcgccc gtttctggc tccgtcatg 
ttcccctat tatcgtggg ttggacggg aatgagaag 
gagctccag ttgggttat gacgatatt ttggggatg 
tatgagctt tacattcgc aggaatata gcggaggag 
gcgccaact agtgtttca ccaacttca acaagtgtt 
gaaacttca actggagtt tcaccaaca atttcaaca 
agtgttgaa acttcaact ggtgtttca ccaacaatt 
tcaacaagt gttgaaact tcaacattt ggtgtttca 
agtgttgaa acttcaact ccagttgtg gtgtaccat 
ggtgacgac gaatctgtc gaaacccac aagaaccat 
gacgacacc catggaata ccatcaaca aactcgccc 
agtcttccc aacatttgt gacgcctcc tttgacgct 
gtggcagtc ctaagggac caaattttc attttcaag 
gaacaatac ttgtggaga cttgacgat ttatccagg 
attgtacca ggataccct atttcaatc agccaaatg 
tttccagac ttgcccaaa agtgttaaa aaagtggac 
gctgcttac gagcgacct gatggaatg atagtttta 
ttcagtggg gacaaattc tgggtctat gacggtaag 
aaattcata gaaggtagt ccgagacca ttgtccgac 
tatggtcta cctgacaca cttgataaa atcgatgcg 
gtgcaaaca tgggccagg aatggcaaa acctacttt 
tacaaggat gagattttt tggaggtat aacgaaacg 
gaggggaga atggatgaa gggtacccc aaacatatg 
aagcgctgg aggggggta ccccaccac ctggacgct 
gccactact ttcagagga attacttat tttttcaag 
gataaattg tactggaac gttggttag
    mRNA sequence
    • >TC012853 RA
      acttaatga actattaaa agagtgtca agagcgaac 
cgagtcatt gtttcccga ccatttgaa cgaatatta 
cgcttatta tgcttgtgg gccacttaa tcattttaa 
tttccacaa caactctcg gattcccag ttacgaacc 
cgaaaatac cgtcagtga aagtcttgg aatttttaa 
aaaactttg gctatatcg aaggtgacg atgacactt 
ttggcgccc tttacaccg aaaacggca tttccgaaa 
cgatcaaaa acgtgcaaa aattcgggg atttacccc 
aaactggcg tcttggaca atgcaacac ttgcgttga 
tggcaactc cacggtgcg gcaacgccg acattatca 
ggaacaaac gctcgaaac gttacgttt tgggctccg 
aagggtggg gaaaacgca ccatttctt attttatcg 
ctaactggt ccccaaagc tgggtcaag cctcagtgt 
cccgaaaca tcgaactgg ctctgaaaa cttggggga 
agtacgggc acttaaaat tcgaaaaac gccaaaacc 
cggatgccg acattattg tggcgtttg gtagcgggt 
accatggtg ataccagcc cgtttgatg gtcctggta 
atatcctag cccatgcct ttttcccca atgagggtt 
cggatgggt tcggtggtg atattcact tcgatgctg 
atgaaaatt gggttgatg gtaatggca cagatggga 
cggaattcg taatggttg cgttacatg agctgggac 
attcgctgg gtttggccc attcgcccg tttctggct 
ccgtcatgt tcccctatt atcgtgggt tggacggga 
atgagaagg agctccagt tgggttatg acgatattt 
tggggatgt atgagcttt acattcgca ggaatatag 
cggaggagg cgccaacta gtgtttcac caacttcaa 
caagtgttg aaacttcaa ctggagttt caccaacaa 
tttcaacaa gtgttgaaa cttcaactg gtgtttcac 
caacaattt caacaagtg ttgaaactt caacatttg 
gtgtttcaa gtgttgaaa cttcaactc cagttgtgg 
tgtaccatg gtgacgacg aatctgtcg aaacccaca 
agaaccatg acgacaccc atggaatac catcaacaa 
actcgccca gtcttccca acatttgtg acgcctcct 
ttgacgctg tggcagtcc taagggacc aaattttca 
ttttcaagg aacaatact tgtggagac ttgacgatt 
tatccagga ttgtaccag gatacccta tttcaatca 
gccaaatgt ttccagact tgcccaaaa gtgttaaaa 
aagtggacg ctgcttacg agcgacctg atggaatga 
tagttttat tcagtgggg acaaattct gggtctatg 
acggtaaga aattcatag aaggtagtc cgagaccat 
tgtccgact atggtctac ctgacacac ttgataaaa 
tcgatgcgg tgcaaacat gggccagga atggcaaaa 
cctactttt acaaggatg agatttttt ggaggtata 
acgaaacgg aggggagaa tggatgaag ggtacccca 
aacatatga agcgctgga ggggggtac cccaccacc 
tggacgctg ccactactt tcagaggaa ttacttatt 
ttttcaagg ataaattgt actggaacg ttggttagg 
gtgtcccga agacgaggc aacttttgc gcaattatt 
caattatc

    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