Status
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Gene information
General information
TC015217 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: 1291886..1295522
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
    		TC015217
    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
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    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_02431

    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: 40.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 3 (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: 7 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015217 RA
      MANAILNTF LRKLGPLSA PKLVLNNGA ALLHTSGNK 
KAKWYPDPE YMAQFDGPV MYPDEVTSK WVLPPWNAQ 
KAPVERSVK NLTLNFGPQ HPAAHGVLR LVIELDGEM 
VRRADPHIG LLHRGTEKL IEYKTYTQA LPYFDRLDY 
VSMMCNEQC YSLAVEKLL NIDVPLRAK YIRTLFAEI 
TRILNHIMA VGTHALDVG ALTPFFWLF EEREKMMEF 
YERVSGARM HAAYIRPGG VSLDMPLGL MDDIYEFAS 
KFGERLDEV EDVLTTNRI WVQRTQDIG VVSAEDALN 
LGFSGVMLR GSGIKWDLR KVQPYDAYD LVDFDVPIG 
VKGDCYDRY LCRVEEMRQ SLRIIDQCL NNMPPGEIK 
TDDAKLTPP SRAEMKTSM EALIHHFKL FTQGYQVPP 
GATYTAIEA PKGEFGVYL VSDGGSKPY RCKIKAPGF 
AHLAALEKV GKNHMLADI VAIIGTLDV VFGEIDR
    CDS sequence
    • >TC015217 RA
      atggcaaac gcaatttta aacacgttt ttacgcaaa 
ctggggccc ctttcagcc cccaaactg gtcctaaac 
aacggcgct gcgctactg cacaccagt ggcaataaa 
aaagcgaaa tggtacccc gaccccgaa tacatggcg 
caattcgac ggcccggtc atgtacccc gacgaggtc 
accagcaaa tgggtgcta cccccatgg aacgcccag 
aaagccccc gtcgaacgg tcggtcaaa aacctcact 
ttgaacttt gggccccag catccggcc gcccacggg 
gtcctgcgg ctggtgatc gagttggac ggggagatg 
gtgcggcgg gcggacccc cacataggg ctcctccac 
cgcgggacg gagaaacta atcgagtac aagacctac 
acgcaggct ttgccctac tttgaccgc cttgactac 
gtctcgatg atgtgcaac gagcagtgt tacagtctc 
gctgttgaa aaactccta aatattgat gtgcccctt 
agggccaaa tacataaga acgctgttt gcggaaatt 
acgcgcatt ctgaaccat attatggcc gtggggacg 
cacgctctg gacgtgggg gccctgact ccgttcttt 
tggctgttt gaggagcgt gagaaaatg atggagttt 
tacgagagg gtgtcgggg gcccgcatg cacgcggcg 
tatatcagg ccagggggc gtttctctg gatatgccg 
ctaggtctc atggacgat atttacgaa tttgcgtcg 
aaatttggc gaaagactt gacgaagtt gaggatgtt 
ctcactacg aataggatt tgggtgcaa aggacgcaa 
gatattggg gttgtttcg gccgaagat gccctcaat 
cttgggttc agtggggtc atgttacgg ggctccgga 
ataaagtgg gatttgcgc aaagttcag ccctacgac 
gcgtacgat ttggtcgat ttcgacgtc ccaattggg 
gtaaaaggc gattgttac gatagatac ctgtgtcgc 
gttgaagaa atgagacag tcgctccga atcatcgac 
caatgtctt aacaacatg ccaccgggt gaaataaag 
acagacgac gccaaactc acacctccc agccgagct 
gaaatgaag acgtcaatg gaagccctc atccaccac 
ttcaagctg ttcacgcag ggctaccag gtgcccccc 
ggcgccacc tacaccgca atcgaggcc ccgaagggc 
gagttcggg gtttactta gtctcagac gggggctcc 
aagccctac cgctgcaaa atcaaggcg cccggcttc 
gcccatttg gcggccctg gaaaaagtg gggaaaaac 
cacatgctg gccgacatt gtggccatt atcgggacc 
ctcgatgtg gtcttcggc gaaatcgat cgataa
    mRNA sequence
    • >TC015217 RA
      tggccgtta ctttggcca cttccagtc cgggggctg 
tccgctgtc aagtgtcaa aatggcaaa cgcaatttt 
aaacacgtt tttacgcaa actggggcc cctttcagc 
ccccaaact ggtcctaaa caacggcgc tgcgctact 
gcacaccag tggcaataa aaaagcgaa atggtaccc 
cgaccccga atacatggc gcaattcga cggcccggt 
catgtaccc cgacgaggt caccagcaa atgggtgct 
acccccatg gaacgccca gaaagcccc cgtcgaacg 
gtcggtcaa aaacctcac tttgaactt tgggcccca 
gcatccggc cgcccacgg ggtcctgcg gctggtgat 
cgagttgga cggggagat ggtgcggcg ggcggaccc 
ccacatagg gctcctcca ccgcgggac ggagaaact 
aatcgagta caagaccta cacgcaggc tttgcccta 
ctttgaccg ccttgacta cgtctcgat gatgtgcaa 
cgagcagtg ttacagtct cgctgttga aaaactcct 
aaatattga tgtgcccct tagggccaa atacataag 
aacgctgtt tgcggaaat tacgcgcat tctgaacca 
tattatggc cgtggggac gcacgctct ggacgtggg 
ggccctgac tccgttctt ttggctgtt tgaggagcg 
tgagaaaat gatggagtt ttacgagag ggtgtcggg 
ggcccgcat gcacgcggc gtatatcag gccaggggg 
cgtttctct ggatatgcc gctaggtct catggacga 
tatttacga atttgcgtc gaaatttgg cgaaagact 
tgacgaagt tgaggatgt tctcactac gaataggat 
ttgggtgca aaggacgca agatattgg ggttgtttc 
ggccgaaga tgccctcaa tcttgggtt cagtggggt 
catgttacg gggctccgg aataaagtg ggatttgcg 
caaagttca gccctacga cgcgtacga tttggtcga 
tttcgacgt cccaattgg ggtaaaagg cgattgtta 
cgatagata cctgtgtcg cgttgaaga aatgagaca 
gtcgctccg aatcatcga ccaatgtct taacaacat 
gccaccggg tgaaataaa gacagacga cgccaaact 
cacacctcc cagccgagc tgaaatgaa gacgtcaat 
ggaagccct catccacca cttcaagct gttcacgca 
gggctacca ggtgccccc cggcgccac ctacaccgc 
aatcgaggc cccgaaggg cgagttcgg ggtttactt 
agtctcaga cgggggctc caagcccta ccgctgcaa 
aatcaaggc gcccggctt cgcccattt ggcggccct 
ggaaaaagt ggggaaaaa ccacatgct ggccgacat 
tgtggccat tatcgggac cctcgatgt ggtcttcgg 
cgaaatcga tcgataatt ttaagtgta aataaataa 
tgaatcaat aaataggtt taaataaa

    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