Status
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Gene information
General information
TC011351 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: 4258659..4261495
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
    		TC011351
    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_05018

    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 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%
    -
    labium not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

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

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

    thorax number decreased - 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 number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

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

    adult lethality - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011351 RA
      MFNNTKTDH SKSIFSNVY RTNNHQARP HLRTPLTFK 
SSSLSCTQR PKDPEILYF NEKILRRKT KNTVTECST 
QTSKTILQL AQLEIVKNG TFLSPFPHF ETPPQDGPL 
NLSVHHAQI VTPPPMSPD SLATTPHNT SMFNCPYSV 
TNRLSDYTL DGSCTEHDL KKNSEIRSQ SFVECYSHP 
NYIQDPAPK SKIPKPRFV QRRSSKSLD LPDNSFVRR 
VSSPFCHAQ SSFMSPTKS SQIKSNMAD IKSANFLIP 
PMRRGRSTS PKPVSTKKW FETSRKIPY IDQSRSDMS 
SSTTLINAT RNPELVRLE GIERDLSKS DLSIKISDD 
VLSLITNAQ VSNSSVDTT ICMAVNKLR EPDWRLALR 
GLADIVEIC RVIDIDLIY DYMPSIHQR LIELLKSPR 
SHVCRTACQ AAGHLFEYV KDTRRPEFD DIVDILLHK 
TADSNRFIR HDANLALDC MVTHISTFN AVRALCQKG 
PFHKNPLVR CATVRLLVC AIVIAGADF VLNPNNNEY 
TRKRVILNM ARFLEDKNL ETRKLAERL YKVLSKDTR 
FEVYLKKYL EKEQITKIK KTLRIIHKK
    CDS sequence
    • >TC011351 RA
      atgttcaac aacacgaaa accgatcac tccaaatcg 
attttctcc aacgtgtac cgcaccaac aaccaccaa 
gcccgcccc cacctccgc acgccactc accttcaag 
tcctcctcc ctctcctgc acccaacgc ccaaaggac 
cccgaaatt ctctatttc aacgagaaa atccttcgc 
cgaaaaacg aaaaacaca gttacggaa tgtagcacc 
caaaccagt aaaacaatc ctccagttg gcacagttg 
gaaatcgtc aaaaacggt acttttctc tcgcccttc 
ccccatttc gaaaccccg ccccaggac ggccctctc 
aacctatcc gtgcaccac gcgcaaatc gtgactcca 
ccccccatg tcacccgat agtctggcg accacgccc 
cataataca tcgatgttt aattgtcca tactctgtg 
accaatcgc ctctcggat tacacactt gacggttcg 
tgtactgaa cacgacttg aagaaaaac tcagaaata 
cgcagccaa tcatttgtt gagtgctac tcccaccct 
aactatatc caagacccc gcccccaaa tccaaaatc 
cctaaacca cgattcgtc caaagacgc agctccaaa 
tcgttggac ctccccgat aattcgttt gtacgtcga 
gtctcctcc cccttttgc cacgcccag agtagtttt 
atgtcaccc accaaatcc agtcaaatt aagagcaat 
atggcggat ataaaaagc gccaatttt ttgattccg 
ccaatgagg agaggccgt tcgaccagt cctaagcca 
gtttcaaca aaaaaatgg ttcgaaacg tcgaggaaa 
atcccttat attgatcaa agtaggtct gatatgagt 
agttcaacc accttgatc aacgctacg aggaatccc 
gaacttgtc cgattggag gggatcgaa agggatttg 
tcaaagagt gacttaagt attaaaata tccgatgat 
gttttgagt ttgattact aacgcacaa gtgtcaaat 
tcgtccgtt gacaccacc atttgtatg gctgtcaat 
aaattgagg gagccagac tggaggttg gccttacgt 
ggcctcgcc gacattgtg gagatctgt cgcgtgatt 
gacattgac cttatctac gactacatg ccaagcatt 
catcagcga ctcatcgaa ctattgaaa agtccacgt 
tcgcacgtt tgtcgaaca gcgtgtcaa gcagctgga 
catctcttc gaatacgtc aaagacaca cgtcggcct 
gaatttgac gatatcgtc gacatactt ctacataaa 
acagccgat tcaaatcgt tttatacga catgatgct 
aatttagca ctcgactgc atggttaca cacatttcc 
acattcaat gcagttcga gctttgtgt caaaaagga 
ccatttcac aaaaatcca ctagtgaga tgtgcaacg 
gtcaggctt ctggtttgc gcgattgta attgcagga 
gctgatttt gtactcaat ccgaataat aacgaatat 
acgagaaaa agagtgatt ttgaatatg gcgcgcttt 
ttggaggac aaaaatctc gaaacgagg aagttggcc 
gaaaggttg tataaagtg ttgtcgaaa gatacgaga 
tttgaagtc tacttgaag aaatatcta gagaaggaa 
cagattacg aagattaaa aaaacttta aggattata 
cacaagaaa tga
    mRNA sequence
    • >TC011351 RA
      agtgtcaaa aaaatgtaa atctctcaa aatgttcaa 
caacacgaa aaccgatca ctccaaatc gattttctc 
caacgtgta ccgcaccaa caaccacca agcccgccc 
ccacctccg cacgccact caccttcaa gtcctcctc 
cctctcctg cacccaacg cccaaagga ccccgaaat 
tctctattt caacgagaa aatccttcg ccgaaaaac 
gaaaaacac agttacgga atgtagcac ccaaaccag 
taaaacaat cctccagtt ggcacagtt ggaaatcgt 
caaaaacgg tacttttct ctcgccctt cccccattt 
cgaaacccc gccccagga cggccctct caacctatc 
cgtgcacca cgcgcaaat cgtgactcc accccccat 
gtcacccga tagtctggc gaccacgcc ccataatac 
atcgatgtt taattgtcc atactctgt gaccaatcg 
cctctcgga ttacacact tgacggttc gtgtactga 
acacgactt gaagaaaaa ctcagaaat acgcagcca 
atcatttgt tgagtgcta ctcccaccc taactatat 
ccaagaccc cgcccccaa atccaaaat ccctaaacc 
acgattcgt ccaaagacg cagctccaa atcgttgga 
cctccccga taattcgtt tgtacgtcg agtctcctc 
ccccttttg ccacgccca gagtagttt tatgtcacc 
caccaaatc cagtcaaat taagagcaa tatggcgga 
tataaaaag cgccaattt tttgattcc gccaatgag 
gagaggccg ttcgaccag tcctaagcc agtttcaac 
aaaaaaatg gttcgaaac gtcgaggaa aatccctta 
tattgatca aagtaggtc tgatatgag tagttcaac 
caccttgat caacgctac gaggaatcc cgaacttgt 
ccgattgga ggggatcga aagggattt gtcaaagag 
tgacttaag tattaaaat atccgatga tgttttgag 
tttgattac taacgcaca agtgtcaaa ttcgtccgt 
tgacaccac catttgtat ggctgtcaa taaattgag 
ggagccaga ctggaggtt ggccttacg tggcctcgc 
cgacattgt ggagatctg tcgcgtgat tgacattga 
ccttatcta cgactacat gccaagcat tcatcagcg 
actcatcga actattgaa aagtccacg ttcgcacgt 
ttgtcgaac agcgtgtca agcagctgg acatctctt 
cgaatacgt caaagacac acgtcggcc tgaatttga 
cgatatcgt cgacatact tctacataa aacagccga 
ttcaaatcg ttttatacg acatgatgc taatttagc 
actcgactg catggttac acacatttc cacattcaa 
tgcagttcg agctttgtg tcaaaaagg accatttca 
caaaaatcc actagtgag atgtgcaac ggtcaggct 
tctggtttg cgcgattgt aattgcagg agctgattt 
tgtactcaa tccgaataa taacgaata tacgagaaa 
aagagtgat tttgaatat ggcgcgctt tttggagga 
caaaaatct cgaaacgag gaagttggc cgaaaggtt 
gtataaagt gttgtcgaa agatacgag atttgaagt 
ctacttgaa gaaatatct agagaagga acagattac 
gaagattaa aaaaacttt aaggattat acacaagaa 
atgagtgtt tttttatta ttatgtaag gtacgggtg 
ttttaataa agctctatt gagtta

    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