Status
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Gene information
General information
TC015155 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: 2275619..2280948
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
    		TC015155
    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_05765

    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: 40.0% (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: 2 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    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
    • >TC015155 RA
      MQVLFVFAF FGAISGKER IWRFVSDIS SPENWQGGG 
LATGCKGVH FSAVNTAPV YLRELTTPE IVLPEDGEV 
DLLEGGAIE FKDNKKCIK LKPIDYHSW YDSDSWTTP 
TTNPAIPHK QRIPCLQDA VTFPNIEHA RIIEDLGTT 
IQISSLKFS NKIIDNSFL ENFIDSKIG HDVFYNPLG 
PFSLIIDKT QCDDPYGCL CHNEFVPCP LKKTQKKVQ 
CREPIEPEE FCEAICGAY VTYEPGSGP DLKQLREKL 
REFEVNTWA SRVKNYLGN QVIQIVFTE REFTGESHK 
EAEVLYEFL KIRDTKKLQ ILKSGEFYI EGGGSPTWS 
IVLGSLLTV VGFFALLLY LQSDNNAVM VVINRYHKR 
GSIFSVPFF ARFDNTDEN LIIDGQSET GSILDIAKS 
FDNPMYGQS TSTQHENPV YEDDGQSPR PSTEVTEHE 
NPLYEVEE
    CDS sequence
    • >TC015155 RA
      atgcaagtc ttgttcgtg ttcgctttt ttcggtgcc 
atttccgga aaagagcgc atttggcgt tttgtcagt 
gatatatcg agtccggag aactggcag ggcggggga 
ttggcgaca gggtgcaaa ggggtgcat ttttcggcg 
gttaacaca gctccggtg tatctaaga gaattaaca 
acaccggaa attgtgtta ccggaggat ggggaggtg 
gatttgctc gaagggggc gcgattgaa ttcaaggat 
aataagaaa tgtataaaa ttaaagccc atcgactac 
cattcatgg tacgattcc gacagctgg accaccccc 
acaaccaac cccgccatc ccccacaaa cagcgcatc 
ccctgcctc caagacgcc gtcaccttc cccaacatc 
gaacacgcc cgaattatc gaagacctc ggaaccaca 
attcaaata agttccctc aaattctcc aacaaaatc 
atcgacaac tccttcctc gaaaacttc atcgactcg 
aaaataggc cacgacgtt ttttacaac cctttaggg 
ccctttagc ctcatcata gacaaaaca caatgcgac 
gacccttac ggctgtctg tgtcacaac gaattcgtc 
ccttgccca ctcaaaaaa acccaaaaa aaagtgcaa 
tgtcgggaa ccaatcgaa ccggaagaa ttttgcgaa 
gcaatctgt ggagcttat gttacttat gagccagga 
agtgggcca gatttgaaa caattgaga gagaaatta 
agggagttt gaagtcaat acgtgggcg agtcgagtc 
aagaattat ttgggaaat caagtcatt cagattgtt 
ttcactgag agggaattt acaggagaa agtcacaaa 
gaagccgaa gttttgtac gaatttttg aaaattcgg 
gacacaaaa aaattgcaa attctcaaa tctggggag 
ttttatatt gaaggtggg ggttccccg acttggtcc 
attgtttta gggagtttg ttaacagtt gtgggtttt 
ttcgcatta ttgttgtac ctccagagt gacaataat 
gcggttatg gtcgtcata aacaggtat cacaagcga 
ggttcgatc tttagtgtc ccatttttc gcccgtttt 
gacaacact gacgaaaat ttgattatc gatggccaa 
tcagagacc ggatcgatt ctggacatt gctaaatct 
ttcgataac ccaatgtat gggcaaagt accagcacc 
cagcacgaa aacccagtg tatgaggac gatgggcaa 
agccctaga cctagcact gaagttaca gaacacgaa 
aacccattg tatgaagtt gaagaataa
    mRNA sequence
    • >TC015155 RA
      cagcgtcca aaacaatgc aagtcttgt tcgtgttcg 
cttttttcg gtgccattt ccggaaaag agcgcattt 
ggcgttttg tcagtgata tatcgagtc cggagaact 
ggcagggcg ggggattgg cgacagggt gcaaagggg 
tgcattttt cggcggtta acacagctc cggtgtatc 
taagagaat taacaacac cggaaattg tgttaccgg 
aggatgggg aggtggatt tgctcgaag ggggcgcga 
ttgaattca aggataata agaaatgta taaaattaa 
agcccatcg actaccatt catggtacg attccgaca 
gctggacca cccccacaa ccaaccccg ccatccccc 
acaaacagc gcatcccct gcctccaag acgccgtca 
ccttcccca acatcgaac acgcccgaa ttatcgaag 
acctcggaa ccacaattc aaataagtt ccctcaaat 
tctccaaca aaatcatcg acaactcct tcctcgaaa 
acttcatcg actcgaaaa taggccacg acgtttttt 
acaaccctt tagggccct ttagcctca tcatagaca 
aaacacaat gcgacgacc cttacggct gtctgtgtc 
acaacgaat tcgtccctt gcccactca aaaaaaccc 
aaaaaaaag tgcaatgtc gggaaccaa tcgaaccgg 
aagaatttt gcgaagcaa tctgtggag cttatgtta 
cttatgagc caggaagtg ggccagatt tgaaacaat 
tgagagaga aattaaggg agtttgaag tcaatacgt 
gggcgagtc gagtcaaga attatttgg gaaatcaag 
tcattcaga ttgttttca ctgagaggg aatttacag 
gagaaagtc acaaagaag ccgaagttt tgtacgaat 
ttttgaaaa ttcgggaca caaaaaaat tgcaaattc 
tcaaatctg gggagtttt atattgaag gtgggggtt 
ccccgactt ggtccattg ttttaggga gtttgttaa 
cagttgtgg gttttttcg cattattgt tgtacctcc 
agagtgaca ataatgcgg ttatggtcg tcataaaca 
ggtatcaca agcgaggtt cgatcttta gtgtcccat 
ttttcgccc gttttgaca acactgacg aaaatttga 
ttatcgatg gccaatcag agaccggat cgattctgg 
acattgcta aatctttcg ataacccaa tgtatgggc 
aaagtacca gcacccagc acgaaaacc cagtgtatg 
aggacgatg ggcaaagcc ctagaccta gcactgaag 
ttacagaac acgaaaacc cattgtatg aagttgaag 
aataataaa tattcccgt ctattattt ttttcttca 
attaattta attactcac caaaacctt ggtggtgac 
gttatcacg tataacgtc ttcgttttt gagcagaat 
caaggcttt tgttcgctc atttgggtt aacacgagg 
ttgcaatta tcatgaaaa tttgaccga aactgtggt 
tggttttct ttgtaaggg atactttat cttctttat 
cgaagagtc aataaagca actatttga ag

    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