Status
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Gene information
General information
TC015248 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_007423.3: 9464494..9467834
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
    		TC015248
    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_05785

    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: 1 (3 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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015248 RA
      MENTETEEP GWRPNNPDD ESGWNCSVH PSVFFLLGT 
LLLTTCATG MLCAAIMTD HWEEVTWDR TALEHLANS 
SVRLRWLLD GVVARVSTN DERDKIVAF LVPMHGGIW 
TLCVSLTEE EISLLGRVG FPSVQPCVN YLSGGIDGV 
KGYEPRGDW QHRMQNLSI SCALVCLIV LGSAALVGA 
FGVFQHQIS AVLVTGVMY LLAGSFALF TLTIIHFKR 
LHGKPASID SDGTVDGVV SPLGGRGVN ELLPARIFT 
TSWSLDLGW GGVMLCVMT SVLWILLSK IMRFNPISS 
MIN
    CDS sequence
    • >TC015248 RA
      atggagaat actgaaacc gaggaaccg ggttggagg 
cctaataat cccgacgac gaatcggga tggaactgc 
agcgtccac ccgagcgtg tttttcctc ctggggacg 
ctactgctg acaacttgt gccacgggg atgttgtgt 
gcggctatt atgaccgat cattgggaa gaggttacg 
tgggatcgc acagctttg gagcattta gccaatagt 
tcggtcaga ctgcgatgg cttttagat ggggtcgtt 
gccagagtc tccaccaat gacgaaaga gacaagatc 
gtggccttt ctggtgcca atgcacggg ggtatttgg 
acactgtgt gtgagtttg accgaggaa gaaatatca 
ttgttgggt cgtgtgggg tttccgtcg gtccaaccc 
tgcgtgaac tacctctcc ggcgggatc gacggtgtc 
aaaggttac gaaccgcgt ggcgattgg caacaccga 
atgcaaaat ctatcaata tcttgcgcg ctggtgtgc 
ctgatagtc ctggggagc gcggccctc gtgggggct 
ttcggcgtg ttccagcac cagataagc gccgttttg 
gtcacgggg gtcatgtac ctcctcgcg gggtcgttc 
gcccttttc acgttaaca ataatacat tttaagcga 
ttgcacggc aagccggcg agtatcgac tcggacggc 
accgtggac ggggtggtg agcccgctg ggcgggcgc 
ggggtgaac gagttactc ccggcccgc atttttacg 
acgtcctgg tcgttagac ctgggctgg ggaggtgtc 
atgttgtgc gtaatgacc tccgttttg tggatcctg 
ttatcgaaa ataatgagg ttcaacccc atttccagc 
atgattaac tga
    mRNA sequence
    • >TC015248 RA
      tgtgagaaa agaggatca tcaccactt ctggaccta 
ataaaacag ataaacttc caattcttt ataaccctc 
tttcgcgac aaacatcaa ccattcact ccttaaaat 
acttcttcc agttcgtca aggacgcca tcaaactga 
agcaccaac aagaatacg atctcctca tagtcgatt 
gcgacactt tgatggaga atactgaaa ccgaggaac 
cgggttgga ggcctaata atcccgacg acgaatcgg 
gatggaact gcagcgtcc acccgagcg tgtttttcc 
tcctgggga cgctactgc tgacaactt gtgccacgg 
ggatgttgt gtgcggcta ttatgaccg atcattggg 
aagaggtta cgtgggatc gcacagctt tggagcatt 
tagccaata gttcggtca gactgcgat ggcttttag 
atggggtcg ttgccagag tctccacca atgacgaaa 
gagacaaga tcgtggcct ttctggtgc caatgcacg 
ggggtattt ggacactgt gtgtgagtt tgaccgagg 
aagaaatat cattgttgg gtcgtgtgg ggtttccgt 
cggtccaac cctgcgtga actacctct ccggcggga 
tcgacggtg tcaaaggtt acgaaccgc gtggcgatt 
ggcaacacc gaatgcaaa atctatcaa tatcttgcg 
cgctggtgt gcctgatag tcctgggga gcgcggccc 
tcgtggggg ctttcggcg tgttccagc accagataa 
gcgccgttt tggtcacgg gggtcatgt acctcctcg 
cggggtcgt tcgcccttt tcacgttaa caataatac 
attttaagc gattgcacg gcaagccgg cgagtatcg 
actcggacg gcaccgtgg acggggtgg tgagcccgc 
tgggcgggc gcggggtga acgagttac tcccggccc 
gcattttta cgacgtcct ggtcgttag acctgggct 
ggggaggtg tcatgttgt gcgtaatga cctccgttt 
tgtggatcc tgttatcga aaataatga ggttcaacc 
ccatttcca gcatgatta actgagcaa taacgagta 
attgcaatc agtacaaaa ccgagaaat gcttgcatc 
gaagaccca aacgtggtt tttgtctaa atgtccaat 
cgctgattt agccgcaat gctaagaag ccgtccaag 
gtaatttaa gtacgtcga cagtggaca cgcttctta 
ccacaattg ttcgctact cgttgcaag ctgttgtga 
atcctttta ttacaatca ttcgaactt ttgtaagtt 
tggtacact actggcaaa cgggagcaa taaatgaat 
caaacttga

    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