Status
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Gene information
General information
TC012039 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: 7321359..7326778
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
    		TC012039
    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
    {{ goGene }}
    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 *
    {{ blurReferenceResult }}
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05155

    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)

    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): 30% - 50%

    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): 30% - 50%
    labrum bent - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs size decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    legs coxa size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs femur fused - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    legs tibiotarsus fused - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - 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: 0.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (41 dpi)
    Days post injection

    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012039 RA
      MEVNPLSVI LVKSDSKGD RLLFRYPFR FLEKNEPAN 
TKRRNPYTL PNLEDLLQS PTQPTSNIN KGHLTGFTD 
EVLSSLFAV KSELCNNKF ELKVNDVRF VGHPTLLQL 
RNKQQDASG LMLINVVFA LQALASHSV VTCYHDLSK 
RVGIALRYE EKRCGYVSE QTQTMTTAH DDGYTGNSE 
SAFETILTK CTLAKNIKK LYEDLCSTG LVNIQINKW 
ITLSFCLPQ KVHQWHLRG KFVEPKDID RCLKALRPY 
HSLLLLHPI QQMADFTGL DGSPSLERM LKQYSPIKN 
LQTLAADAD LTLHHVFEL TAHLVYWAK ATVIFPICL 
TNKYVIAPD APIHLNSPL IDKFSEAFP TANLIRVIS 
DFALPTSLG QKCNPLCHP AQQSHLVQT IIWMLQHHL 
LLQLHTYVQ YMPTDHGLA VPREKDERL VSQRNIGNV 
LSSSSYHPS TSEHSRAES ESGTSTVSE TPELRSESD 
LINRSINLE NVSFTSVED EKQDYQEEL LLDFPDEER 
GNIFKIPAT NNPEDLRLF ARLCRKGYF HGNHHIEEI 
MYLENLRRS QLLQLLDKF RDVLITYET EDPAIAMFS 
YT
    CDS sequence
    • >TC012039 RA
      atggaggtg aaccctttg agtgtgatt ttggtgaaa 
tcggacagc aagggggac cgcctctta tttcggtac 
cccttccgg ttcttagag aaaaacgag ccggcaaac 
accaaacgg cgaaatcct tacacgtta ccaaacctt 
gaggaccta ctacagtcc cccactcag cccacatcg 
aacataaat aagggccac ttgaccggt ttcactgac 
gaagtcctg tcgtctcta tttgccgtg aagtccgaa 
ttgtgcaat aataagttt gagctgaaa gtcaacgat 
gtgcgattt gtgggtcac ccgactttg ctgcagttg 
cggaataaa caacaggac gcttctggt ttaatgttg 
attaatgtg gtgtttgct ttacaagcc cttgctagt 
cattcagtt gtaacgtgt taccacgat ttgagtaaa 
agagttgga attgcgtta cgttatgag gaaaaacgc 
tgtggttat gtgagcgaa cagacgcaa accatgacc 
acagcacac gatgatggg tacactggt aactcagaa 
tcggccttc gagactatt ttaactaag tgtacgttg 
gcgaaaaat attaaaaag ttgtatgaa gatttgtgc 
agcactgga ctagtcaat attcaaatt aacaaatgg 
atcactttg agtttttgt ttgcctcaa aaggtgcac 
cagtggcac ttgagaggg aaattcgtt gagcctaaa 
gacatagac aggtgtttg aaggcttta cgcccttac 
cacagttta ttattactg caccccatc cagcaaatg 
gccgatttc actggactg gatggctcc ccatcctta 
gaacgaatg ctaaagcaa tattctcca ataaaaaac 
ttgcaaact ttagcagcc gacgccgac ttgaccctc 
caccatgtt tttgagctc acggctcat ttagtttac 
tgggctaaa gctacagtt atattcccc atttgcttg 
actaacaaa tatgtgata gctccagac gcccccatt 
catctgaat tcacctctg attgacaaa ttctcagag 
gctttcccc acagcgaat ttaattcgt gtgattagc 
gatttcgcg ctaccgacc tctttgggc cagaagtgc 
aacccgttg tgtcatccg gcccaacag tctcatttg 
gtacagact attatctgg atgttgcaa caccatcta 
ctgttgcag ctgcacact tatgtgcag tatatgcca 
acagatcac gggttggca gtgcccagg gaaaaggac 
gaacggctc gtttcacaa agaaacata ggaaatgta 
ttgtcctcg agctcgtat cacccgagt acgtccgag 
cactcgcga gccgagtcc gaaagcggc acgtcgacg 
gtgtcggaa acgcccgag cttcgcagc gaatcagat 
ttgatcaac cgcagtata aatctcgaa aatgtgagt 
tttacgtcg gttgaggac gaaaaacag gattatcag 
gaggagttg ctgttggat tttcctgat gaggaacgc 
gggaatatt tttaaaata ccggcaact aataatcca 
gaggatttg cgattgttt gcccgattg tgtcgcaaa 
ggttatttt catgggaat caccacatt gaggagata 
atgtatttg gagaactta cggcgcagt cagttgttg 
cagctcttg gataagttt agggatgtt ttgattacg 
tacgaaacg gaggatccg gctatagct atgttttca 
tacacgtga
    mRNA sequence
    • >TC012039 RA
      catctgttt gctgtcatt ggcaacata accttacac 
tttttccac atttatttc gtgtttaaa atgtgaaaa 
ctgcacgtt tcgcaaaac tgcgactac ttaacacgc 
cagtgagtg ctgttgttt ggtgctagt atggaggtg 
aaccctttg agtgtgatt ttggtgaaa tcggacagc 
aagggggac cgcctctta tttcggtac cccttccgg 
ttcttagag aaaaacgag ccggcaaac accaaacgg 
cgaaatcct tacacgtta ccaaacctt gaggaccta 
ctacagtcc cccactcag cccacatcg aacataaat 
aagggccac ttgaccggt ttcactgac gaagtcctg 
tcgtctcta tttgccgtg aagtccgaa ttgtgcaat 
aataagttt gagctgaaa gtcaacgat gtgcgattt 
gtgggtcac ccgactttg ctgcagttg cggaataaa 
caacaggac gcttctggt ttaatgttg attaatgtg 
gtgtttgct ttacaagcc cttgctagt cattcagtt 
gtaacgtgt taccacgat ttgagtaaa agagttgga 
attgcgtta cgttatgag gaaaaacgc tgtggttat 
gtgagcgaa cagacgcaa accatgacc acagcacac 
gatgatggg tacactggt aactcagaa tcggccttc 
gagactatt ttaactaag tgtacgttg gcgaaaaat 
attaaaaag ttgtatgaa gatttgtgc agcactgga 
ctagtcaat attcaaatt aacaaatgg atcactttg 
agtttttgt ttgcctcaa aaggtgcac cagtggcac 
ttgagaggg aaattcgtt gagcctaaa gacatagac 
aggtgtttg aaggcttta cgcccttac cacagttta 
ttattactg caccccatc cagcaaatg gccgatttc 
actggactg gatggctcc ccatcctta gaacgaatg 
ctaaagcaa tattctcca ataaaaaac ttgcaaact 
ttagcagcc gacgccgac ttgaccctc caccatgtt 
tttgagctc acggctcat ttagtttac tgggctaaa 
gctacagtt atattcccc atttgcttg actaacaaa 
tatgtgata gctccagac gcccccatt catctgaat 
tcacctctg attgacaaa ttctcagag gctttcccc 
acagcgaat ttaattcgt gtgattagc gatttcgcg 
ctaccgacc tctttgggc cagaagtgc aacccgttg 
tgtcatccg gcccaacag tctcatttg gtacagact 
attatctgg atgttgcaa caccatcta ctgttgcag 
ctgcacact tatgtgcag tatatgcca acagatcac 
gggttggca gtgcccagg gaaaaggac gaacggctc 
gtttcacaa agaaacata ggaaatgta ttgtcctcg 
agctcgtat cacccgagt acgtccgag cactcgcga 
gccgagtcc gaaagcggc acgtcgacg gtgtcggaa 
acgcccgag cttcgcagc gaatcagat ttgatcaac 
cgcagtata aatctcgaa aatgtgagt tttacgtcg 
gttgaggac gaaaaacag gattatcag gaggagttg 
ctgttggat tttcctgat gaggaacgc gggaatatt 
tttaaaata ccggcaact aataatcca gaggatttg 
cgattgttt gcccgattg tgtcgcaaa ggttatttt 
catgggaat caccacatt gaggagata atgtatttg 
gagaactta cggcgcagt cagttgttg cagctcttg 
gataagttt agggatgtt ttgattacg tacgaaacg 
gaggatccg gctatagct atgttttca tacacgtga 
gcgtgttga ctattattc attgttttc actaattat 
tttattaca actgttaca atcttcgta tttttgtag 
ttaattttt tactggttg aataaagaa attacaagt 
tt

    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