Status
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Gene information
General information
TC010448 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_007420.3: 7445750..7450004
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
    		TC010448
    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_09081

    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: 0.0% (includes death as pupa, adult)

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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010448 RA
      MAQGKGDIG LIGLAVMGQ NLILNMADH GFTVVAFNR 
SVEKVHAFL ANEAKGKCI IGAESIPDL VSKLKTPRR 
VMMLVKAGD AVDSFIDQL VPHLQKGDI IIDGGNSEY 
QDSERRCKD LRAKGIRFV GAGVSGGED GARYGPSLM 
PGGNKEAWP YIKDIFQSV AAKTDGQPC CDWVGNDGA 
GHFVKMVHN GIEYGDMQL IGEVYHMMQ AIGVDQGKM 
AKTFAEWNK GELDSFLID ITKDIMGFK DTDGKYLLP 
KIRDTAGQK GTGKWTAIA ALNYGMPVT LIGEAVFSR 
CLSALKNER ITASKVLPG PTAKFTGNV DQFLDELRQ 
ALYASKIVS YAQGFMLLR EAAGVHNWD LDYGSIALM 
WRGGCIIRS VFLGQIKLA FDRDPSLKS LLLAPFFLN 
AITRSQNAW RNVVSTAIK LGVPTPALS TALAFYDGY 
RSERLPANL LQAQRDYFG AHTYELLGQ EGKFVHTNW 
TGHGGNVSS SSYNA
    CDS sequence
    • >TC010448 RA
      atggcacaa ggcaagggg gacatcggg ttaataggc 
ctggcagtc atggggcaa aacctcatc ctgaacatg 
gccgaccac ggcttcacc gtggtcgcc ttcaaccgc 
tctgtggaa aaagtccac gctttcctg gccaacgaa 
gccaagggc aagtgcatc atcggggcg gagtccatc 
cctgacttg gtctccaag ctgaagacg ccccgccga 
gtcatgatg ctggtgaag gccggcgac gccgtggac 
agcttcatc gatcagctg gtgccccac ctgcagaag 
ggggacatc atcatcgac ggcggcaac tccgagtac 
caggactcg gagcgccgc tgcaaggac ttgcgggcc 
aaggggatc cgattcgtg ggggccggc gtctcgggc 
ggcgaggac ggggcgcgc tacggcccc agcctcatg 
ccggggggc aacaaggag gcctggccc tacatcaag 
gacattttc cagagcgtg gcggcgaag accgacggg 
cagccctgc tgcgactgg gtcgggaac gacggggct 
gggcatttc gtcaagatg gtgcacaat gggatcgag 
tatggggac atgcagctg atcggggag gtgtaccat 
atgatgcag gccataggg gtcgaccag gggaagatg 
gcgaagacc ttcgccgag tggaacaag ggggagttg 
gacagtttt ctaatcgat atcaccaag gatatcatg 
ggttttaag gatactgat ggcaaatat ttgctgcca 
aaaatccgc gacaccgcc ggccagaaa ggcaccggc 
aagtggaca gccatcgcg gcgctgaac tacggcatg 
cccgtgacc cttatcggc gaagccgtt ttcagccgc 
tgcttatcg gccctcaaa aatgaaaga atcacagcc 
agcaaagtc ctcccaggc cccaccgcc aaattcacc 
ggaaacgtc gaccaattc ctggacgaa ctgcgccag 
gcattgtac gccagcaaa attgtgtca tacgcccaa 
ggcttcatg ttattgcgt gaagctgca ggagtgcac 
aactgggac ctcgactac gggtcgatt gccctcatg 
tggcgcgga ggttgcatc attagatcg gtgttcttg 
ggacaaatc aaactcgcc ttcgataga gatccgagt 
ttgaagtcg ctgcttttg gcccctttt ttcctaaat 
gcgatcaca cggtcgcaa aatgcgtgg aggaatgtt 
gtctcgacg gcaattaaa ttaggagtg ccaactcct 
gctctcagt acagctttg gcgttttat gatggttat 
cgctccgaa cggctacct gcaaatttg ttgcaagcc 
caacgggat tattttggg gcccacact tacgagtta 
ttggggcaa gagggtaaa tttgtccac actaattgg 
accggtcat ggtggaaac gtctcgtca tcgtcttac 
aatgcttaa
    mRNA sequence
    • >TC010448 RA
      cacgcagtc aattagtga tttttattg gaaaacagc 
gccaaaaaa cttgcgatg gcacaaggc aagggggac 
atcgggtta ataggcctg gcagtcatg gggcaaaac 
ctcatcctg aacatggcc gaccacggc ttcaccgtg 
gtcgccttc aaccgctct gtggaaaaa gtccacgct 
ttcctggcc aacgaagcc aagggcaag tgcatcatc 
ggggcggag tccatccct gacttggtc tccaagctg 
aagacgccc cgccgagtc atgatgctg gtgaaggcc 
ggcgacgcc gtggacagc ttcatcgat cagctggtg 
ccccacctg cagaagggg gacatcatc atcgacggc 
ggcaactcc gagtaccag gactcggag cgccgctgc 
aaggacttg cgggccaag gggatccga ttcgtgggg 
gccggcgtc tcgggcggc gaggacggg gcgcgctac 
ggccccagc ctcatgccg gggggcaac aaggaggcc 
tggccctac atcaaggac attttccag agcgtggcg 
gcgaagacc gacgggcag ccctgctgc gactgggtc 
gggaacgac ggggctggg catttcgtc aagatggtg 
cacaatggg atcgagtat ggggacatg cagctgatc 
ggggaggtg taccatatg atgcaggcc ataggggtc 
gaccagggg aagatggcg aagaccttc gccgagtgg 
aacaagggg gagttggac agttttcta atcgatatc 
accaaggat atcatgggt tttaaggat actgatggc 
aaatatttg ctgccaaaa atccgcgac accgccggc 
cagaaaggc accggcaag tggacagcc atcgcggcg 
ctgaactac ggcatgccc gtgaccctt atcggcgaa 
gccgttttc agccgctgc ttatcggcc ctcaaaaat 
gaaagaatc acagccagc aaagtcctc ccaggcccc 
accgccaaa ttcaccgga aacgtcgac caattcctg 
gacgaactg cgccaggca ttgtacgcc agcaaaatt 
gtgtcatac gcccaaggc ttcatgtta ttgcgtgaa 
gctgcagga gtgcacaac tgggacctc gactacggg 
tcgattgcc ctcatgtgg cgcggaggt tgcatcatt 
agatcggtg ttcttggga caaatcaaa ctcgccttc 
gatagagat ccgagtttg aagtcgctg cttttggcc 
ccttttttc ctaaatgcg atcacacgg tcgcaaaat 
gcgtggagg aatgttgtc tcgacggca attaaatta 
ggagtgcca actcctgct ctcagtaca gctttggcg 
ttttatgat ggttatcgc tccgaacgg ctacctgca 
aatttgttg caagcccaa cgggattat tttggggcc 
cacacttac gagttattg gggcaagag ggtaaattt 
gtccacact aattggacc ggtcatggt ggaaacgtc 
tcgtcatcg tcttacaat gcttaattt ttttataaa 
ttatttccc agtgttttt aaggttgtt tgtaaaaga 
gctatttta atacagtat

    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