Status
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Gene information
General information
TC010353 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_007418.3: 24177220..24184151
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
    		TC010353
    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_01672

    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: 30.0% (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

    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: < 50
     remarks: bad quality of preparation,
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010353 RA
      MGCSCCTIK VLLVCVVIS VALLIVSLA LAFKVFPDL 
LESEVNKAV RLEDGTKQY DRFVELPFP VDFKVYLFN 
VSNPQQVLD GTEKPKLEE IGPFVYKQY RKKTILGKN 
EEEDTISYT QKETFEFDA EASKPLTEE SVVTVLNPA 
LMSIYQLAE DLHLAGAAD TCIKQTFEN NQGKVFIEA 
NVRKLLFDG FSFCKNTSP GICGLVNDL ICAIAATKR 
NSDLVLPDY SLIFSYLNY KRKPDDGKY TVKRGLTNI 
EKLGHIVAW NDSLYTKFW GEGTTCSEV KGTDSTLYP 
PRVTTDSAF YIYSTDICR FVKINYKGE ESYKGIDGY 
LFETSEDTL RSSAPEEDC YCSKLSRDM EGKKSCFLD 
GVIDMQTCF GVPVLFSFP HFLWADNKY LSAVEGLNP 
VEEKHKTYL VVEPNTGTP LKGMKRIQL NGVIRPIVG 
IKSMLQTKR ALLPLLWIE EGVSLPQKY VDELKSSYF 
DKVQIVDGV RYALIVISA ILVGAFGII ILRKRSHAK 
HHV
    CDS sequence
    • >TC010353 RA
      atggggtgt tcgtgttgt accatcaaa gtattacta 
gtttgtgta gtaatcagt gtagccctt ttgatagtg 
tccctagcg ctagctttt aaggtattt cccgacctc 
ctggaatct gaagtaaat aaggctgtt aggctcgag 
gatggcact aaacagtat gacagattt gttgaacta 
ccgtttcca gttgacttc aaagtgtac ctctttaac 
gtctcaaac ccccaacaa gttctagat ggaactgaa 
aaacctaaa ctcgaggaa attggaccc tttgtgtac 
aagcaatac aggaaaaag acaatactg ggcaaaaat 
gaagaagaa gacacaatt tcatacaca caaaaggaa 
actttcgaa tttgacgcc gaggcatct aaaccgcta 
acagaagag tcagttgta acggttttg aatcccgca 
ttgatgtca atttatcaa ttggcggag gatcttcac 
ttggccggg gccgcagac acttgcatc aagcaaaca 
tttgagaac aaccaaggc aaagttttt atagaagca 
aacgtgcga aaactgctg tttgacggc tttagtttc 
tgcaagaac acttcgcct ggaatatgt ggccttgta 
aacgaccta atttgtgcg attgcagcg acgaaaaga 
aattcggac cttgtcttg cccgactat tctttgata 
ttttcctat ttgaactac aaacgaaag ccggatgat 
ggcaaatat accgtgaag agaggtctc accaacatt 
gaaaaactg ggacatatt gtggcatgg aatgacagt 
ttgtatacg aaattttgg ggggaaggc accacctgc 
agtgaagtt aaagggacc gattcgacc ctttatccc 
cctagggtt acaacagat agtgcattt tacatctat 
tcgacggac atctgcagg tttgtgaaa atcaattac 
aaaggagaa gagagttac aaaggcatc gatggctat 
ttatttgaa accagtgag gacactttg cgaagctcc 
gcccctgag gaagactgc tattgcagt aaattgagc 
agagacatg gaaggcaaa aagagttgt ttcttggat 
ggagtaata gacatgcaa acttgtttc ggagtgcca 
gttcttttc tcattccca cacttcttg tgggccgat 
aacaagtac ttaagtgca gtggaagga ctaaaccct 
gtcgaggaa aaacacaaa acgtatctc gttgtcgag 
ccaaatact ggaactcct ctgaaagga atgaaaagg 
attcaactg aatggagtc attaggccg attgttgga 
ataaaatca atgttgcaa accaagcga gctttattg 
ccgcttttg tggatagaa gaaggagtg tctctgccc 
caaaaatac gtcgatgaa ctaaaatcg agctacttt 
gacaaggtt cagatagtc gatggtgtt agatacgct 
cttatagta atatcagcc atattggtt ggtgctttt 
ggaattatt attttacga aaacgttca cacgctaaa 
caccatgta taa
    mRNA sequence
    • >TC010353 RA
      aatagattt atctcatca cttccaata acttataaa 
cactttaat gtggacact gaaatagtt taggcgcaa 
aatggggtg ttcgtgttg taccatcaa agtattact 
agtttgtgt agtaatcag tgtagccct tttgatagt 
gtccctagc gctagcttt taaggtatt tcccgacct 
cctggaatc tgaagtaaa taaggctgt taggctcga 
ggatggcac taaacagta tgacagatt tgttgaact 
accgtttcc agttgactt caaagtgta cctctttaa 
cgtctcaaa cccccaaca agttctaga tggaactga 
aaaacctaa actcgagga aattggacc ctttgtgta 
caagcaata caggaaaaa gacaatact gggcaaaaa 
tgaagaaga agacacaat ttcatacac acaaaagga 
aactttcga atttgacgc cgaggcatc taaaccgct 
aacagaaga gtcagttgt aacggtttt gaatcccgc 
attgatgtc aatttatca attggcgga ggatcttca 
cttggccgg ggccgcaga cacttgcat caagcaaac 
atttgagaa caaccaagg caaagtttt tatagaagc 
aaacgtgcg aaaactgct gtttgacgg ctttagttt 
ctgcaagaa cacttcgcc tggaatatg tggccttgt 
aaacgacct aatttgtgc gattgcagc gacgaaaag 
aaattcgga ccttgtctt gcccgacta ttctttgat 
attttccta tttgaacta caaacgaaa gccggatga 
tggcaaata taccgtgaa gagaggtct caccaacat 
tgaaaaact gggacatat tgtggcatg gaatgacag 
tttgtatac gaaattttg gggggaagg caccacctg 
cagtgaagt taaagggac cgattcgac cctttatcc 
ccctagggt tacaacaga tagtgcatt ttacatcta 
ttcgacgga catctgcag gtttgtgaa aatcaatta 
caaaggaga agagagtta caaaggcat cgatggcta 
tttatttga aaccagtga ggacacttt gcgaagctc 
cgcccctga ggaagactg ctattgcag taaattgag 
cagagacat ggaaggcaa aaagagttg tttcttgga 
tggagtaat agacatgca aacttgttt cggagtgcc 
agttctttt ctcattccc acacttctt gtgggccga 
taacaagta cttaagtgc agtggaagg actaaaccc 
tgtcgagga aaaacacaa aacgtatct cgttgtcga 
gccaaatac tggaactcc tctgaaagg aatgaaaag 
gattcaact gaatggagt cattaggcc gattgttgg 
aataaaatc aatgttgca aaccaagcg agctttatt 
gccgctttt gtggataga agaaggagt gtctctgcc 
ccaaaaata cgtcgatga actaaaatc gagctactt 
tgacaaggt tcagatagt cgatggtgt tagatacgc 
tcttatagt aatatcagc catattggt tggtgcttt 
tggaattat tattttacg aaaacgttc acacgctaa 
acaccatgt ataataata ggtggacac aaattaata 
ttatatatt tgtgttgta aatacaatc ttacccagt 
at

    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