Status
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Gene information
General information
TC011325 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_007425.3: 3469473..3471180
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
    		TC011325
    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 *
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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_05014

    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

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    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: 70.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

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

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    larva lethality late (L7) - 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

    Pupal morphology
    antenna size shortened - Number of animals showing the phenotype: 3

    wings size shortened - Number of animals showing the phenotype: 3

    wings not closed - Number of animals showing the phenotype: 3
    wings shape irregular - Number of animals showing the phenotype: 3
    oblique dorsal thoracic muscles partially not present - Number of animals showing the phenotype: 2

    oblique dorsal thoracic muscles partially fragmented - Number of animals showing the phenotype: 2
    female genital lobes rounded - Number of animals showing the phenotype: 2

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011325 RA
      MMDVAKHRR SRSRSPDHR RHKTDRSFK NDRNRRHRS 
RSHSRSRDR HSSRRRSRS RGTTTNGFE RNDKYEVTK 
KKHLEDEFM ESRRQEREI LGMRDYPSI WGQSPEPED 
SDSDVEDVT KNAPKLKKR KKEKKKSHK KHKKKKKKK 
KSSSESSSG EEEWVEKTT TTNKPQTNA EETEEVIVG 
PILKPHAAL THKEMGKAL LPGEGAAMA AYVAEGKRI 
PRRGEIGLT SEEIESFEA VGYVMSGSR HRRMEAVRI 
RKENQIYSA DEKRALAMF SKEERQKRE NRILGQFRE 
MVNSKLAEK KN
    CDS sequence
    • >TC011325 RA
      atgatggat gtggcaaaa cacagacgc agtcggtcc 
cgttccccg gaccaccgg agacacaaa actgataga 
tcgtttaaa aatgatcgt aataggaga cacaggtcc 
aggtctcat tccaggtca agagaccgc cattccagc 
agacgcagg tctagatcc agaggcacc acaacaaac 
ggttttgaa cgaaacgac aaatatgaa gtcacaaag 
aaaaaacac cttgaggac gagttcatg gagtcccga 
cgccaggag cgtgagatc ctcggaatg agggattac 
cccagcatt tggggccaa tcccccgaa cccgaagac 
tccgacagt gacgtcgaa gacgtcacc aagaacgcc 
cccaagcta aaaaaacgg aagaaggaa aagaaaaaa 
tcccacaag aagcataaa aagaagaag aaaaagaag 
aagtcttca agtgagagc agttcaggg gaggaagag 
tgggtcgag aagaccaca accaccaac aaaccccaa 
accaatgcg gaagagacc gaagaggtg atcgtcggc 
cccattttg aagccccat gccgccctg actcacaag 
gaaatgggc aaggctttg ctccctggt gagggggct 
gccatggct gcgtacgtc gccgaagga aaacggata 
ccaagaaga ggtgaaatt ggactcacg tctgaagaa 
attgaaagt tttgaagcc gtgggttat gtcatgtcc 
ggctcaaga cacaggaga atggaggct gtgaggata 
cggaaagaa aaccagatt tattcagct gatgagaag 
cgggctttg gccatgttc agcaaagaa gaacggcag 
aagagggag aacaggatt ttgggacag ttcagggaa 
atggtcaac tccaaactg gccgaaaag aaaaattaa
    mRNA sequence
    • >TC011325 RA
      gggaatgac gtaaagtga cttcagttt gacagtttt 
ttttaaagg ttatgttat tgtaaaaaa attgatttt 
ttacgaaat gatggatgt ggcaaaaca cagacgcag 
tcggtcccg ttccccgga ccaccggag acacaaaac 
tgatagatc gtttaaaaa tgatcgtaa taggagaca 
caggtccag gtctcattc caggtcaag agaccgcca 
ttccagcag acgcaggtc tagatccag aggcaccac 
aacaaacgg ttttgaacg aaacgacaa atatgaagt 
cacaaagaa aaaacacct tgaggacga gttcatgga 
gtcccgacg ccaggagcg tgagatcct cggaatgag 
ggattaccc cagcatttg gggccaatc ccccgaacc 
cgaagactc cgacagtga cgtcgaaga cgtcaccaa 
gaacgcccc caagctaaa aaaacggaa gaaggaaaa 
gaaaaaatc ccacaagaa gcataaaaa gaagaagaa 
aaagaagaa gtcttcaag tgagagcag ttcagggga 
ggaagagtg ggtcgagaa gaccacaac caccaacaa 
accccaaac caatgcgga agagaccga agaggtgat 
cgtcggccc cattttgaa gccccatgc cgccctgac 
tcacaagga aatgggcaa ggctttgct ccctggtga 
gggggctgc catggctgc gtacgtcgc cgaaggaaa 
acggatacc aagaagagg tgaaattgg actcacgtc 
tgaagaaat tgaaagttt tgaagccgt gggttatgt 
catgtccgg ctcaagaca caggagaat ggaggctgt 
gaggatacg gaaagaaaa ccagattta ttcagctga 
tgagaagcg ggctttggc catgttcag caaagaaga 
acggcagaa gagggagaa caggatttt gggacagtt 
cagggaaat ggtcaactc caaactggc cgaaaagaa 
aaattaatt tcgtagaat tgagtgttt attacgtat 
aaataaagt ttttttatt acttaattt gttttacat 
tgttgtacc caaccggtc catccccca gggaaatgt 
ttggcgctg aaaattgaa cttaaattt cgggtcaaa 
gtggcctat gatttcgaa ttaagttgg caacatcta 
gttgccaac taaatttaa aaatcacag gcgacttta 
attaaagac ggaacaaaa cgaatgttt tactttacg 
tatcccaga tttttggct aaatctagc gcagctcgg 
ctccgccgc cccgactga caactgaaa actaaaggc 
gtggtgttt gtaggcttt tctcttcgg aaaacttga 
cgaaattgt tcatcactt gtgttctgc agcgtttct 
tctaaagtg gccacttga aatgaagta ctttgcagt 
taattcata agttaatta gggtattta caaggtata 
ttgatgctt ccaggaatt gttccagtt tgcgctaat 
tccgacggg ttcctcaca tcaattaga agaacctgt 
ctgttgtct tttaggctt ctaacgtag tcaaaagtt 
acttcgtct gacattctg tggcttata tttaacgtt 
tgtgagaat tgggataga gggcgctcg agtgactgg 
caatttttt atcggattg aaatgaatt ctatgcaca 
agtgaatga gcccttatg tgctgtttc aatccaata 
aaaaagccc agttgct

    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