Status
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Gene information
General information
TC013651 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: 6956408..6959433
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
    		TC013651
    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_10014

    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: 50.0% (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

    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 embryo/egg not developed/not fertilized - 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
     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: % (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
    • >TC013651 RA
      MDNEEERPA DVEGLAVVE GPVDIEGPV DVEGPADAE 
GPAHVEGPA HVEGPADVE GPADAEGPA HVEGPADVE 
GPADAEGPA HVEGPANVE GPADVGLEE PPMLDLAAA 
FENLKIEGS FLSSPLEES VALMTEEVA SSTSATDCK 
VVSKAEETG SVTDMTESK TTSDESFKT AGDMVEETT 
TSSEVEETS NTAKAEDVV PGSDPSIRV GNVIEEATT 
SELNTTLTE GAEIVAKTD SSIRVGSMI EEATTSGGD 
IKTEEMVPI LPSNSGVSV VAQATASTA NMGDFEDTE 
KMVSNTGRS KSADSMVVE ATDSTANIA ELDEMLSAI 
LPSRSIDSM VVQTTASTA NVSDLRDFL HRSREHANA 
STQKFLAVP PSPGISDYD LYQHLLKSS PTTSNQQLP 
KLIKIRPDY VITQPIKIK TELKENGSG NNELDEAYK 
KIANLSDEN KKYVNDLKE LQNKCESTL NNFSLLKES 
HSKLENELQ LVKEDNVKL SESLRQYDE VMNELCKKN 
KTMREMYDK EFEKRTRLE AEIKNLTLE GFNGANEMA 
ENRFKAKIQ EVTNQNSQL KEILKVLRS QLNIEHDKE 
NKAAAAN
    CDS sequence
    • >TC013651 RA
      atggataac gaggaagaa aggcctgct gatgtcgaa 
gggcttgct gttgtcgaa ggacctgtt gatatcgaa 
ggacctgtt gatgtcgaa gggcctgct gatgccgaa 
ggacctgct catgtcgaa gggcctgct catgtcgaa 
gggcctgct gatgtcgaa gggcctgct gatgccgaa 
ggacctgct catgtcgaa gggcctgct gatgtcgaa 
gggcctgct gatgccgaa ggacctgct catgtcgaa 
gggcctgct aatgttgaa gggcctgct gatgtcggc 
cttgaagag cctccgatg cttgatttg gcggctgcc 
ttcgagaac ctgaagatt gaagggagt ttcctaagc 
agtccactt gaagagtct gtagctttg atgaccgaa 
gaagtggcc tcttctaca tctgctacc gactgtaaa 
gttgtttct aaagcagaa gagacggga agtgttaca 
gatatgaca gaatccaag accacgtca gatgaatct 
tttaaaact gctggtgat atggtggag gaaacaact 
acgtcaagt gaagtagag gaaacgtcg aatactgct 
aaagcggaa gacgtggta cctggttct gacccttct 
ataagagtt ggtaatgtg atagaggaa gcaactact 
tcagagttg aatacaact ttaactgaa ggagcggag 
attgtagca aaaactgat tcttctata agagttggt 
agtatgata gaggaagca actacgtca ggaggtgat 
atcaaaaca gaagagatg gtacctatt ctcccgtcg 
aatagtggt gttagcgtg gtagctcaa gcgactgcc 
tcaacagcg aatatgggc gatttcgaa gatacggaa 
aaaatggtg tccaatact gggcggtcg aaaagtgct 
gatagtatg gtggtcgaa gccactgac tcaactgca 
aatattgca gaactagat gaaatgtta tccgcaatt 
cttccgtct aggagtatt gatagcatg gtggtgcaa 
acaactgcc tcaacagcg aatgttagc gatctcaga 
gactttctc catcgaagc agagaacat gccaatgct 
tccacacag aaattttta gcagtgcct ccgtcaccg 
ggaatttcg gattatgat ctctatcaa catttgtta 
aaatcgtct ccaacaaca tcaaaccaa cagttgcct 
aaattgatt aaaataaga ccagactat gtcataaca 
caacccata aaaataaag actgaattg aaggagaat 
ggaagtggt aacaatgaa ttagatgaa gcctacaaa 
aaaattgca aacttgtca gacgaaaac aaaaaatac 
gtaaatgat ttgaaagag cttcaaaat aaatgtgag 
tcaaccttg aacaatttc tcattactc aaagaaagt 
cactcgaaa cttgaaaac gaacttcaa ttggtgaaa 
gaggataat gtgaaatta agcgaaagt ttgcgtcaa 
tatgatgaa gttatgaac gagctttgt aaaaaaaat 
aaaacaatg cgagagatg tatgacaag gaatttgag 
aagagaact aggcttgaa gcagaaata aagaatcta 
acactagag ggatttaac ggggcgaat gaaatggca 
gaaaataga tttaaggcg aaaatacaa gaagtcact 
aatcaaaac agtcagttg aaggagata cttaaagtg 
ttacgttct caactaaac attgagcac gataaggaa 
aataaggca gcagcggct aattag
    mRNA sequence
    • >TC013651 RA
      aatcaaaac ctgtgtaaa cttgttaaa ggctttagt 
ttttctgtg taatttagt tgtgcctgt ttttgatat 
ggagaagca agtcacaat ggataacga ggaagaaag 
gcctgctga tgtcgaagg gcttgctgt tgtcgaagg 
acctgttga tatcgaagg acctgttga tgtcgaagg 
gcctgctga tgccgaagg acctgctca tgtcgaagg 
gcctgctca tgtcgaagg gcctgctga tgtcgaagg 
gcctgctga tgccgaagg acctgctca tgtcgaagg 
gcctgctga tgtcgaagg gcctgctga tgccgaagg 
acctgctca tgtcgaagg gcctgctaa tgttgaagg 
gcctgctga tgtcggcct tgaagagcc tccgatgct 
tgatttggc ggctgcctt cgagaacct gaagattga 
agggagttt cctaagcag tccacttga agagtctgt 
agctttgat gaccgaaga agtggcctc ttctacatc 
tgctaccga ctgtaaagt tgtttctaa agcagaaga 
gacgggaag tgttacaga tatgacaga atccaagac 
cacgtcaga tgaatcttt taaaactgc tggtgatat 
ggtggagga aacaactac gtcaagtga agtagagga 
aacgtcgaa tactgctaa agcggaaga cgtggtacc 
tggttctga cccttctat aagagttgg taatgtgat 
agaggaagc aactacttc agagttgaa tacaacttt 
aactgaagg agcggagat tgtagcaaa aactgattc 
ttctataag agttggtag tatgataga ggaagcaac 
tacgtcagg aggtgatat caaaacaga agagatggt 
acctattct cccgtcgaa tagtggtgt tagcgtggt 
agctcaagc gactgcctc aacagcgaa tatgggcga 
tttcgaaga tacggaaaa aatggtgtc caatactgg 
gcggtcgaa aagtgctga tagtatggt ggtcgaagc 
cactgactc aactgcaaa tattgcaga actagatga 
aatgttatc cgcaattct tccgtctag gagtattga 
tagcatggt ggtgcaaac aactgcctc aacagcgaa 
tgttagcga tctcagaga ctttctcca tcgaagcag 
agaacatgc caatgcttc cacacagaa atttttagc 
agtgcctcc gtcaccggg aatttcgga ttatgatct 
ctatcaaca tttgttaaa atcgtctcc aacaacatc 
aaaccaaca gttgcctaa attgattaa aataagacc 
agactatgt cataacaca acccataaa aataaagac 
tgaattgaa ggagaatgg aagtggtaa caatgaatt 
agatgaagc ctacaaaaa aattgcaaa cttgtcaga 
cgaaaacaa aaaatacgt aaatgattt gaaagagct 
tcaaaataa atgtgagtc aaccttgaa caatttctc 
attactcaa agaaagtca ctcgaaact tgaaaacga 
acttcaatt ggtgaaaga ggataatgt gaaattaag 
cgaaagttt gcgtcaata tgatgaagt tatgaacga 
gctttgtaa aaaaaataa aacaatgcg agagatgta 
tgacaagga atttgagaa gagaactag gcttgaagc 
agaaataaa gaatctaac actagaggg atttaacgg 
ggcgaatga aatggcaga aaatagatt taaggcgaa 
aatacaaga agtcactaa tcaaaacag tcagttgaa 
ggagatact taaagtgtt acgttctca actaaacat 
tgagcacga taaggaaaa taaggcagc agcggctaa 
ttagaattg aagttagag ttaattgag aaaaactgt 
agtattgtt tgatatttt tgtttgctt tattttttt 
tttaattaa taaatattg attttggtt

    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