Status
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Gene information
General information
TC015567 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: 2461477..2463973
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
    		TC015567
    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
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    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_02492

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    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): 30% - 50%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 11.11% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 22.22% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015567 RA
      MRTVPNDLF VYLGLFAVL FSGLIAFYT IVPQNYGPR 
PQKPHIIII MADDVGRND VGFYGSGQI PTPSIDALA 
YNGIILDRF YTQCSCTPS RAALLTGQY PIRLGMQGL 
PIRAGENKS LPLDVVTMP QYLKRLGYK THLVGKWHL 
GYAHIEDTP LQRGFDSHF GYWNGFVGY FNYTAVYEL 
ANDTMVKGF DLFDGVVPA WQERGKYAT DLFTHKAMK 
IIDEHNSEK PLFLVLAHL AGHTGEDGV ELGVPDVAQ 
AETRFSFIK NPKRRLYAD IVSRLDDSV GQIVEKLDE 
KNLLDNSII LFLSDNGAQ TIGVYENSG SNWPLRGLK 
LTEFEGGIR APAAIYSPL FHQKGYVSK ELIHITDFL 
PTFYAAAGG NLEYLGKID GVNQWEVLS QQKPGKRDE 
ILVNFNEID NVSAIIMGQ YKLVQGRLA FPEYGDYHG 
DSGRNPEDP PYNFTAVLS KNINQQNRN KIESLRNQT 
DLSWCRGEK NQPLIDCTE GCLFNLESD PCETTNIIQ 
EEKIIAGKL LGRLFEFSQ ILVPQQVAI FDPESNPEF 
YNGTWCTWL DPQFCPKTI
    CDS sequence
    • >TC015567 RA
      atgaggaca gtaccgaac gatttgttc gtctattta 
ggccttttt gctgtgtta ttttccggc ctgatcgcc 
ttttacaca atagtaccg caaaactat gggccacgg 
ccacaaaaa ccccacatt atcataata atggccgac 
gatgtgggt cgtaacgat gtcggtttt tacggttcg 
ggtcaaatc ccgacccca agtatcgac gctttggct 
tacaatggc attattctg gaccggttt tacactcaa 
tgttcgtgt accccatcc cgagcggcc cttctaact 
gggcagtac cccattaga ttgggtatg caagggttg 
ccgataagg gccggcgag aataaatcg ttgcctctt 
gatgttgtc acaatgccc caatatttg aaacgtttg 
gggtacaag acccatttg gtcgggaaa tggcatttg 
gggtatgcc catatagag gataccccg ttgcaaagg 
gggtttgat agtcatttt gggtactgg aacgggttt 
gtgggttat ttcaactat acggcggtt tatgaactg 
gcaaatgat acgatggtt aaagggttc gatttgttt 
gatggggtc gtaccagcg tggcaagaa cgtggcaag 
tacgccact gatttattt acacacaag gctatgaaa 
atcatagat gaacacaat agtgagaaa ccgttgttt 
ttggttttg gcccatttg gctgggcat acgggcgaa 
gatggggtc gagttgggt gtgcctgat gttgcacag 
gccgaaacg aggttctcg tttattaaa aatcccaaa 
cggcgactt tacgccgac attgtgtca cgtctggac 
gattctgtt ggtcagatt gtggaaaaa ttggacgaa 
aaaaacctt ctagacaac tcgatcatt cttttctta 
tcagataac ggggcacaa actatcggg gtgtacgaa 
aattccggc tcgaattgg cctttaaga ggactcaaa 
ttgaccgaa tttgagggc ggaattcgg gccccagcg 
gcgatttac agcccactt ttccaccaa aaaggctac 
gtgagtaaa gaactgata cacatcact gattttttg 
cccactttt tacgccgcc gctggtggc aatttggaa 
tatttgggc aaaatcgat ggtgtgaac cagtgggag 
gttttatcg cagcaaaag ccgggcaaa agggacgaa 
attctggtc aattttaac gaaattgac aacgtttcg 
gccataatt atgggacag tacaagctg gttcaaggg 
agacttgct tttcccgaa tatggggac taccatggt 
gacagtgga cgtaatcct gaggaccca ccgtataat 
ttcactgcg gttttgtcc aagaatatt aaccagcaa 
aatagaaac aaaattgaa agtttgagg aatcaaact 
gacttgagc tggtgcagg ggtgaaaaa aaccaaccc 
ctaatcgat tgtacagag ggttgtttg tttaatcta 
gagagtgac ccttgtgag accactaat atcattcag 
gaggaaaaa ataatagcg gggaaatta cttggacga 
ctttttgaa ttttcccaa attttggtc ccccagcaa 
gtggcgatt tttgatcca gaatcgaat cccgaattt 
tacaacggg acttggtgc acgtggctc gatccacag 
ttttgtccc aaaactatt taa
    mRNA sequence
    • >TC015567 RA
      tctcagtta ctaaaatga ggacagtac cgaacgatt 
tgttcgtct atttaggcc tttttgctg tgttatttt 
ccggcctga tcgcctttt acacaatag taccgcaaa 
actatgggc cacggccac aaaaacccc acattatca 
taataatgg ccgacgatg tgggtcgta acgatgtcg 
gtttttacg gttcgggtc aaatcccga ccccaagta 
tcgacgctt tggcttaca atggcatta ttctggacc 
ggttttaca ctcaatgtt cgtgtaccc catcccgag 
cggcccttc taactgggc agtacccca ttagattgg 
gtatgcaag ggttgccga taagggccg gcgagaata 
aatcgttgc ctcttgatg ttgtcacaa tgccccaat 
atttgaaac gtttggggt acaagaccc atttggtcg 
ggaaatggc atttggggt atgcccata tagaggata 
ccccgttgc aaagggggt ttgatagtc attttgggt 
actggaacg ggtttgtgg gttatttca actatacgg 
cggtttatg aactggcaa atgatacga tggttaaag 
ggttcgatt tgtttgatg gggtcgtac cagcgtggc 
aagaacgtg gcaagtacg ccactgatt tatttacac 
acaaggcta tgaaaatca tagatgaac acaatagtg 
agaaaccgt tgtttttgg ttttggccc atttggctg 
ggcatacgg gcgaagatg gggtcgagt tgggtgtgc 
ctgatgttg cacaggccg aaacgaggt tctcgttta 
ttaaaaatc ccaaacggc gactttacg ccgacattg 
tgtcacgtc tggacgatt ctgttggtc agattgtgg 
aaaaattgg acgaaaaaa accttctag acaactcga 
tcattcttt tcttatcag ataacgggg cacaaacta 
tcggggtgt acgaaaatt ccggctcga attggcctt 
taagaggac tcaaattga ccgaatttg agggcggaa 
ttcgggccc cagcggcga tttacagcc cacttttcc 
accaaaaag gctacgtga gtaaagaac tgatacaca 
tcactgatt ttttgccca ctttttacg ccgccgctg 
gtggcaatt tggaatatt tgggcaaaa tcgatggtg 
tgaaccagt gggaggttt tatcgcagc aaaagccgg 
gcaaaaggg acgaaattc tggtcaatt ttaacgaaa 
ttgacaacg tttcggcca taattatgg gacagtaca 
agctggttc aagggagac ttgcttttc ccgaatatg 
gggactacc atggtgaca gtggacgta atcctgagg 
acccaccgt ataatttca ctgcggttt tgtccaaga 
atattaacc agcaaaata gaaacaaaa ttgaaagtt 
tgaggaatc aaactgact tgagctggt gcaggggtg 
aaaaaaacc aacccctaa tcgattgta cagagggtt 
gtttgttta atctagaga gtgaccctt gtgagacca 
ctaatatca ttcaggagg aaaaaataa tagcgggga 
aattacttg gacgacttt ttgaatttt cccaaattt 
tggtccccc agcaagtgg cgatttttg atccagaat 
cgaatcccg aattttaca acgggactt ggtgcacgt 
ggctcgatc cacagtttt gtcccaaaa ctatttaac 
tttgtgtaa ttggttatc atttgtaca taaatgaaa 
ataaacact gggtaattg g

    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