Status
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Gene information
General information
TC015292 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_007421.3: 911318..913865
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
    		TC015292
    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_05791

    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: 60.0% (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 with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): more than 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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015292 RA
      MNFETINTT SALTWALLF IVLFFIIKY NWNRRWLYY 
YGSKIDGPF AWPIIGIAH YFIGGQKVF YNQLTKLFE 
AQPPIFKFW LGQDLVVAT SRLKDVEII LNNCFEKPK 
FYNFMCEVT GNGLLTARE NIWKERRKM INQAFSLKV 
LHSYVDIFS KRAKCLISW FEEDFGKED VFFKLYRCT 
FDTACEALA DVDPTLLHG KNNYINNLK RMIDILTIR 
SFSIWLHDD FFWKLSPLS KEMSKASAE TFSFIKQII 
GLKKLDPKN HTSKRFLNH LLTLNETNP KFDDSAIEE 
ELQTILITS SESTALTVG MILTVLGIY PEIQKKVSK 
ELDSIFGHD DRETTLEDV QKMKYLECV IKETSRVLP 
AVPLLARLA DKDIKLDNY TIPAGSIIV IPIWQIGKN 
ADFWKNPKK FDPDRFLPE NCDPNRPRS SFIPFSYGP 
RNCIGFQYS NMLVKVLTA TILRKYTIK CPQYTSFEQ 
VEIIFSITA RPKHGFKIQ MEKKL
    CDS sequence
    • >TC015292 RA
      atgaacttt gaaacgata aacaccaca tcggccctc 
acatgggct ttgttattt attgttcta ttttttata 
ataaaatac aactggaac agacgctgg ttgtattat 
tatgggtct aaaatcgac ggtcccttc gcctggccc 
atcatcgga atcgcccat tacttcatc ggcggccaa 
aaagtattt tacaatcaa cttactaaa ctatttgag 
gcccaaccg ccaattttc aaattttgg ttgggccag 
gatttggta gttgcgaca tcaaggcta aaagacgtc 
gaaattatt ttaaacaat tgtttcgag aaaccgaaa 
ttttataat ttcatgtgc gaagtgaca gggaatggt 
cttctaaca gctcgggaa aacatttgg aaggagagg 
agaaaaatg atcaatcag gctttcagt ttgaaagtt 
ttacattcg tatgttgat attttttcg aaacgtgca 
aagtgttta ataagttgg tttgaggag gattttggc 
aaagaagat gtttttttt aagttgtat aggtgcact 
ttcgatacc gcctgtgaa gcacttgca gatgttgat 
cctacttta cttcatggt aaaaataat tacataaac 
aacttaaaa agaatgata gatattctg acaattcgt 
tcgttcagt atttggctt catgacgat tttttttgg 
aaactgtcg cctttaagc aaagaaatg agcaaagct 
tctgccgaa acattttct tttataaaa caaatcatt 
ggtttgaaa aaattagac ccaaaaaat catacttcc 
aaacgtttc ctaaatcac ttattgacc ttgaatgaa 
acaaatcca aaatttgac gactcagcc attgaagaa 
gaactccaa accattctg atcacttct agtgagagc 
actgccctt acggttggt atgattttg acagtttta 
gggatatat ccagaaata cagaaaaaa gtgtccaaa 
gaacttgat tcaattttt ggccacgat gacagagaa 
acaactctt gaagacgtc caaaaaatg aaatatcta 
gaatgtgtt attaaggaa acttcgagg gtactccca 
gcagtacca ctgcttgca agactagcc gataaagac 
ataaaatta gacaattac accattcct gctggaagt 
ataatagta atcccgatt tggcaaatt ggcaaaaac 
gccgatttt tggaaaaat ccgaaaaaa ttcgatcct 
gaccgattt ttgcccgaa aattgtgac ccaaatcgt 
ccgcgttct agcttcatt ccgtttagt tacggacca 
agaaattgc ataggcttc cagtacagt aacatgtta 
gtcaaagtg ctaacggcc acaatttta cgaaagtac 
acaatcaag tgcccacag tatacaagt ttcgaacaa 
gttgagatc attttcagt attactgca cgaccaaaa 
catggcttc aaaatacaa atggaaaag aaattgtaa
    mRNA sequence
    • >TC015292 RA
      taaacatga actttgaaa cgataaaca ccacatcgg 
ccctcacat gggctttgt tatttattg ttctatttt 
ttataataa aatacaact ggaacagac gctggttgt 
attattatg ggtctaaaa tcgacggtc ccttcgcct 
ggcccatca tcggaatcg cccattact tcatcggcg 
gccaaaaag tattttaca atcaactta ctaaactat 
ttgaggccc aaccgccaa ttttcaaat tttggttgg 
gccaggatt tggtagttg cgacatcaa ggctaaaag 
acgtcgaaa ttattttaa acaattgtt tcgagaaac 
cgaaatttt ataatttca tgtgcgaag tgacaggga 
atggtcttc taacagctc gggaaaaca tttggaagg 
agaggagaa aaatgatca atcaggctt tcagtttga 
aagttttac attcgtatg ttgatattt tttcgaaac 
gtgcaaagt gtttaataa gttggtttg aggaggatt 
ttggcaaag aagatgttt tttttaagt tgtataggt 
gcactttcg ataccgcct gtgaagcac ttgcagatg 
ttgatccta ctttacttc atggtaaaa ataattaca 
taaacaact taaaaagaa tgatagata ttctgacaa 
ttcgttcgt tcagtattt ggcttcatg acgattttt 
tttggaaac tgtcgcctt taagcaaag aaatgagca 
aagcttctg ccgaaacat tttctttta taaaacaaa 
tcattggtt tgaaaaaat tagacccaa aaaatcata 
cttccaaac gtttcctaa atcacttat tgaccttga 
atgaaacaa atccaaaat ttgacgact cagccattg 
aagaagaac tccaaacca ttctgatca cttctagtg 
agagcactg cccttacgg ttggtatga ttttgacag 
ttttaggga tatatccag aaatacaga aaaaagtgt 
ccaaagaac ttgattcaa tttttggcc acgatgaca 
gagaaacaa ctcttgaag acgtccaaa aaatgaaat 
atctagaat gtgttatta aggaaactt cgagggtac 
tcccagcag taccactgc ttgcaagac tagccgata 
aagacataa aattagaca attacacca ttcctgctg 
gaagtataa tagtaatcc cgatttggc aaattggca 
aaaacgccg atttttgga aaaatccga aaaaattcg 
atcctgacc gatttttgc ccgaaaatt gtgacccaa 
atcgtccgc gttctagct tcattccgt ttagttacg 
gaccaagaa attgcatag gcttccagt acagtaaca 
tgttagtca aagtgctaa cggccacaa ttttacgaa 
agtacacaa tcaagtgcc cacagtata caagtttcg 
aacaagttg agatcattt tcagtatta ctgcacgac 
caaaacatg gcttcaaaa tacaaatgg aaaagaaat 
tgtaattaa taaaagata aacaagttt

    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