Status
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Gene information
General information
TC010947 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: 1679371..1708294
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
    		TC010947
    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_01767

    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: 20.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    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
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    antenna remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    labrum remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    mandible remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    maxilla fragmented - Penetrance (percentage of animals/eggs on slide): less than 30%
    metathorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen complete 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: 60.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 90.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection

    adult lethality immediately after eclosion - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010947 RA
      MKLIALLLT LALTNAQQN NTTSPRKIP KRSYVCPPH 
FMRLSHRCY YFSKEAATW QEAYFQCRD LHSNLAIVR 
NSNQDKLIR RTLSKKSLE PLERWLGGL YDWEQMTWK 
WAASGKPVT YQGFSQMDP EDKEKLRWH CIIVDPKLQ 
FKWNTRSCL ERKHFICHT KIKIVTSKG KKKLLRQYN 
VNKYNKLNE IPVPTLPED GNYNTTSLK AVNINNAQF 
ALKPKERKR RTRKNKRKK VNLQDSGYN STLGERRRR 
QKNKEEGDL SNERIKWKT YYKDSTLNP LHPKPIVEE 
FNYVKEA
    CDS sequence
    • >TC010947 RA
      atgaagctg atcgcgcta ttattaact ttggcattg 
acaaatgcc caacagaac aataccacg tctcctaga 
aaaataccc aagaggagc tacgtgtgt ccccctcat 
ttcatgaga cttagccac aggtgttac tacttcagc 
aaagaagca gccacgtgg caagaagcc tatttccag 
tgcagagac ctccacagt aatcttgcc attgtcagg 
aactccaat caggacaaa cttatccgg agaacttta 
agcaagaag tctttagaa cctctagaa agatggctt 
ggtggcctc tacgactgg gaacaaatg acttggaag 
tgggcagcg tctggcaaa cctgtcacc tatcaaggg 
ttctctcag atggatcct gaagataag gagaagttg 
cgctggcac tgcatcatc gttgatccc aaactccaa 
ttcaagtgg aacactcga agttgcttg gaacgaaag 
catttcatt tgccacacc aagatcaaa atcgttacc 
agcaaaggt aaaaagaag ttgttgcga caatataac 
gtcaacaag tacaacaaa ctgaacgaa atcccggtt 
ccaacttta cccgaagat ggcaactac aacaccacg 
agcttgaaa gctgtgaac atcaacaat gcccagttt 
gcgcttaag cccaaggag cggaaacgc agaactcgg 
aagaataag aggaagaaa gtcaacttg caggatagt 
ggatacaac agcacgctt ggtgagagg agacgccgg 
cagaagaac aaggaagag ggcgatttg tccaatgag 
cggattaaa tggaagacg tattacaaa gattcgact 
ttgaatccg ttgcatcct aagcccatc gttgaagag 
ttcaactat gtgaaggag gcttga
    mRNA sequence
    • >TC010947 RA
      atgccagca gcttggcat tacagcatt ttgcgtcca 
acttcgaaa cgaagcgtt gtgcgtttg tgtgcaatg 
ttctgatag acgacggtt agtgtttcg gtgcgttac 
cgttggcaa agttcactg tgcccgcag agatttata 
agccgtgaa cttttatta aatatgcag tgaacttgt 
gacgaatgg acggagttt aatgatgac aaagcgacc 
accgaggaa gatgaagta gatgttaga gaagaaatc 
gaagagatg aagctgatc gcgctatta ttaactttg 
gcattgaca aatgcccaa cagaacaat accacgtct 
cctagaaaa atacccaag aggagctac gtgtgtccc 
cctcatttc atgagactt agccacagg tgttactac 
ttcagcaaa gaagcagcc acgtggcaa gaagcctat 
ttccagtgc agagacctc cacagtaat cttgccatt 
gtcaggaac tccaatcag gacaaactt atccggaga 
actttaagc aagaagtct ttagaacct ctagaaaga 
tggcttggt ggcctctac gactgggaa caaatgact 
tggaagtgg gcagcgtct ggcaaacct gtcacctat 
caagggttc tctcagatg gatcctgaa gataaggag 
aagttgcgc tggcactgc atcatcgtt gatcccaaa 
ctccaattc aagtggaac actcgaagt tgcttggaa 
cgaaagcat ttcatttgc cacaccaag atcaaaatc 
gttaccagc aaaggtaaa aagaagttg ttgcgacaa 
tataacgtc aacaagtac aacaaactg aacgaaatc 
ccggttcca actttaccc gaagatggc aactacaac 
accacgagc ttgaaagct gtgaacatc aacaatgcc 
cagtttgcg cttaagccc aaggagcgg aaacgcaga 
actcggaag aataagagg aagaaagtc aacttgcag 
gatagtgga tacaacagc acgcttggt gagaggaga 
cgccggcag aagaacaag gaagagggc gatttgtcc 
aatgagcgg attaaatgg aagacgtat tacaaagat 
tcgactttg aatccgttg catcctaag cccatcgtt 
gaagagttc aactatgtg aaggaggct tgacatgtt 
taagtgtgg actaaattt actgttaag tgtgtaaat 
gtatttttg tacaatgat ttaattttg tatttatgt 
acatatatt tctttagct tttttgtgt taattttga 
atgtttggt gctagcagg agttgagtt agagagtgg 
cgacttggt cgaaccgct tgaaagtag tctaatcga 
ctcctgtct acattttac gaagtatta cgactttct 
gttcaatca ttatttgta aaagtactg taatggata 
tttacgata aataaagaa taatctgtt tgtgactcg 
tgcgttcta gaacgcaga gtctgtaca aaaaaattg 
gacaatttt tattttaaa caatcactt attgtctga 
agatttgca aaaaaactt acttatctc tgcttgtgt 
cacgttttg tcgtaaaaa atactgttt cagtcaatc 
ccaagcaat tttgcttcg tttttcagc aaaaaaatt 
aaaagatct tgtcgaaat agactataa aatcaccct 
ttaactagt atttgatcc agaaactcg cttaaatta 
tgagatttt gctgaacct gtacggaaa ttcgtttca 
agtctaaat tgggttatt tgatttaat ttcgaataa 
attgactcg tttttgagt ccgaaactt cgaaaaaaa 
tattgctga aaaagaaaa gggtcgaaa ataatgttt 
ttaaatcct aattaggct atttcagca aattcggag 
cgatttaga gtttttgaa ctataaact ctctgaatt 
caagagatt ttaacacta aaactagaa aatcgttgt 
tttaatctc taattaaat tatttcaat caatttcca 
gtaatttag attttttga ctcagttac ttaatttgt 
ttaagaaat tttgtttga aactgacaa gacgagaca 
aaaaaatca ctttaggtc tgcataagt cataatacc 
gattttagc aaaaacgtt ttcacaaag acggttttg 
aaagtggtt attaggttt tttccgcaa ctctgaaga 
ataaatatt acaataagt tatacatta cataattta 
tatttcatg caagaataa cagtataca aaaacacat 
tataaatgt aattacgag agaatatat atagtatta 
taaaataat caaaatatt gtaaatgtg tatataaag 
tgtcttttt tctggcagt acagaacaa catgctaag 
tcagtttaa actttctaa tattagcgc taagaaata 
tttcaaaat acaacctac aatatttgt tgaacaata 
caattcgaa atgaaaaat tcactgtac tgcccctta 
aataaaaca gacacttga taaggtaat ctgtgctta 
actcataca acgaagtaa gaaaataaa taagtttaa 
ataaatggc agtcactaa tttaagtag tataatata 
caaaacaga ctgaa

    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