Status
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Gene information
General information
TC015316 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: 571188..574879
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
    		TC015316
    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_02452

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

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

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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 early (L5/6) - 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
    • >TC015316 RA
      MDPTLSKET LEKFRSNFF SDEKNIFAQ NVCSRIDPF 
DACLSRKAL EETHHVYEH KVEAEGKPV SNQKNSGRC 
WIFATMNVI RLPFMKHLN IDDFEFSQA YLFFWDKIE 
RCNFFLNNI VETAKRNEP VEGRLVAFL LNDPISDGG 
QWDMIVNLI NKHGLMPKK CFPESFSCE TSAKMNQIL 
KTKLREYAK TIRDLIAKG EGDLKVQNV IREQMNTIY 
RIVGICLGV PAETFTFTY YDKNKTYHS IGPITPKAF 
YEEHVKPVF DVDNKVCIV TDPRPSNQY GKVYTVDCL 
GNVVGGRPC IYNNQPVEL LLDATAKSI KDGEAVWFG 
CEVMKRFAG KQGILDLKI HNFPLVFGV DIQTILSKA 
DRLIYGDSA MSHAMVFTA VSLNEKDEV TKLRVENSW 
GEDRGEKGY LIMSTDWFK EYVFEVVVD KKYVPVDVL 
EVFKQKPIV LPAWDPMGT LANVSC
    CDS sequence
    • >TC015316 RA
      atggatcca actttaagc aaggagact ttggagaaa 
ttccgttcg aatttcttc tcagacgag aagaatatt 
ttcgctcaa aatgtgtgc tcacgtatt gacccattt 
gacgcctgt ctttcgcgt aaggccctc gaggagacc 
catcatgtg tacgagcac aaggtggag gccgaaggc 
aagccggtc agcaatcaa aaaaactca ggccggtgc 
tggattttt gcaacgatg aatgttatc agactgccc 
tttatgaag catttaaat attgatgat tttgaattt 
tcgcaagcc tatctgttc ttctgggac aagatcgaa 
cggtgtaat ttttttctt aataatatt gtcgaaacg 
gccaagcgg aacgaaccg gtggaggga cgtttggtg 
gcttttcta ctcaatgat ccgatttcg gacggaggc 
cagtgggat atgattgtt aatttgatc aataaacat 
ggacttatg cccaagaag tgttttccg gagtcgttc 
agttgcgaa acgagcgcc aaaatgaat caaatcctc 
aagactaaa ttgcgtgaa tacgcgaaa acgatccga 
gacctgatc gccaaaggc gaaggcgac ctcaaagta 
caaaacgta atacgcgaa caaatgaat acgatttat 
cgtattgtt ggcatttgt ttgggtgtg cctgctgag 
acgttcact ttcacttat tacgataag aacaagact 
tatcacagc attggtcca ataacacct aaagcgttc 
tatgaagag catgtgaag cctgttttc gatgtcgat 
aataaagtg tgcatagtt accgatccg cgaccgtct 
aaccaatac ggtaaagta tacacagtg gattgtctg 
gggaatgtt gtgggtgga cgtccctgt atatacaac 
aatcaaccc gttgaactt ttactcgat gccacggcc 
aagtcgatt aaagatggc gaggcagtg tggtttggg 
tgtgaggtt atgaaacga ttcgccgga aaacagggg 
attttagat ttgaaaatt cataatttt ccgttggtt 
tttggtgtg gatattcag acgattttg agtaaagcc 
gatagattg atttatgga gacagtgcc atgtcacat 
gcgatggtt ttcaccgct gtgagcttg aacgaaaaa 
gatgaagtg acgaaattg cgtgtggaa aattcatgg 
ggtgaagat cgtggcgaa aaaggctac ttgattatg 
agtactgac tggttcaag gagtacgtt tttgaagtg 
gtggttgat aaaaagtat gttcctgtt gatgttctt 
gaagttttt aaacaaaaa ccgatcgtc ttgccagct 
tgggacccc atgggaaca cttgccaat gtttcatgt 
taa
    mRNA sequence
    • >TC015316 RA
      tattttaaa cagtttttg tgcaaggca acggttggc 
gatactgtc gtttgacag ttgtagagg tgataggtt 
acaatttgt aacaacttg tacagtttt ttcggttta 
attcccaat ttttgataa catggatcc aactttaag 
caaggagac tttggagaa attccgttc gaatttctt 
ctcagacga gaagaatat tttcgctca aaatgtgtg 
ctcacgtat tgacccatt tgacgcctg tctttcgcg 
taaggccct cgaggagac ccatcatgt gtacgagca 
caaggtgga ggccgaagg caagccggt cagcaatca 
aaaaaactc aggccggtg ctggatttt tgcaacgat 
gaatgttat cagactgcc ctttatgaa gcatttaaa 
tattgatga ttttgaatt ttcgcaagc ctatctgtt 
cttctggga caagatcga acggtgtaa tttttttct 
taataatat tgtcgaaac ggccaagcg gaacgaacc 
ggtggaggg acgtttggt ggcttttct actcaatga 
tccgatttc ggacggagg ccagtggga tatgattgt 
taatttgat caataaaca tggacttat gcccaagaa 
gtgttttcc ggagtcgtt cagttgcga aacgagcgc 
caaaatgaa tcaaatcct caagactaa attgcgtga 
atacgcgaa aacgatccg agacctgat cgccaaagg 
cgaaggcga cctcaaagt acaaaacgt aatacgcga 
acaaatgaa tacgattta tcgtattgt tggcatttg 
tttgggtgt gcctgctga gacgttcac tttcactta 
ttacgataa gaacaagac ttatcacag cattggtcc 
aataacacc taaagcgtt ctatgaaga gcatgtgaa 
gcctgtttt cgatgtcga taataaagt gtgcatagt 
taccgatcc gcgaccgtc taaccaata cggtaaagt 
atacacagt ggattgtct ggggaatgt tgtgggtgg 
acgtccctg tatatacaa caatcaacc cgttgaact 
tttactcga tgccacggc caagtcgat taaagatgg 
cgaggcagt gtggtttgg gtgtgaggt tatgaaacg 
attcgccgg aaaacaggg gattttaga tttgaaaat 
tcataattt tccgttggt ttttggtgt ggatattca 
gacgatttt gagtaaagc cgatagatt gatttatgg 
agacagtgc catgtcaca tgcgatggt tttcaccgc 
tgtgagctt gaacgaaaa agatgaagt gacgaaatt 
gcgtgtgga aaattcatg gggtgaaga tcgtggcga 
aaaaggcta cttgattat gagtactga ctggttcaa 
ggagtacgt ttttgaagt ggtggttga taaaaagta 
tgttcctgt tgatgttct tgaagtttt taaacaaaa 
accgatcgt cttgccagc ttgggaccc catgggaac 
acttgccaa tgtttcatg ttaatttgt attttttgc 
tccaataaa attttgtgg caata

    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