Status
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Gene information
General information
TC030611 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: 7448459..7453614
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
    		TC030611
    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
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    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_09349

    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: 10.0% (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: % (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
    • >TC030611 RA
      MLTVFWLIL LHLLAPIKC QDCILKTPH HLTCVTHLP 
HLENEFPPN ITILELRDI EQDELDLNY MIHKYPQIE 
NVSIYDGNI VRLKSPNPA NKIKVLRLV RIGVENIGN 
KFLANFPNL EILDLRENF LQSLGNFSV GKLKELYLD 
GNTWNCSQD LNWVLKLNQ TIVKDLNNL TCQGNPHPN 
KNLVTIARF TKDLKNNCP SICSCTLPK VVFTKMGSQ 
RLEPLIEVN CSHRGLTHL PLDLPAKSR IIHLEGNEI 
EDLKPLKHH QIYRKVLDL YLDNNKVKT IEELEGSYF 
LKHFRVFSL SGNKLTEVP TYALDNALT QNPHMPNAL 
TISLGGNPW RCDCVFTPV FQEMLQKFA PQIHDLREV 
KCSYVEGDE NSLLPIIEL SRSSVCRSP SEYSVQALD 
LLNGVLASL ILLILGKLA YDYYYFKKT GRLPWIVTK 
MP
    CDS sequence
    • >TC030611 RA
      atgttgacg gttttctgg cttatactt ctccacctt 
cttgcacca atcaaatgc caggattgc atcctcaaa 
accccccac cacctaact tgcgtcacc cacttgcca 
cacctagaa aatgaattt cccccaaac atcacaatt 
cttgaacta cgcgatatt gaacaagat gagcttgac 
ctcaactac atgatccac aaatatccc caaattgaa 
aacgtttcg atctatgac ggcaacatc gtcaggctg 
aaatcacca aaccccgcc aataagata aaagtttta 
cggttggta cgaatcgga gtggagaat attggaaac 
aaattcctt gcaaatttc cccaattta gaaattttg 
gacttgcgg gagaatttt ttacaaagt ttagggaat 
ttttcggtg ggcaaattg aaagaattg tatctcgac 
ggtaacact tggaactgc tcgcaggac ctcaattgg 
gtcctcaaa ctcaaccaa acaatagtc aaggacttg 
aacaatttg acttgtcag gggaatccc cacccgaac 
aagaatcta gtaaccata gctcgcttc acaaaggat 
ttgaaaaac aattgcccc tcgatatgt tcgtgtact 
ttacccaaa gtcgttttc acgaaaatg ggttcccaa 
cgtttggaa cccctcatc gaagttaac tgttcccac 
cgtggtctc actcactta cccctcgac ctccccgca 
aaatctcgc ataatccac cttgaaggc aacgaaatc 
gaagactta aaacccctt aaacaccac caaatctac 
cgaaaagtc ctcgacttg tacctcgac aacaacaaa 
gtgaaaacg atcgaagaa ctcgaaggt tcctatttt 
ctcaaacat ttccgggtg ttttccctc agcggaaac 
aaattgaca gaggtgcca acctacgca cttgacaat 
gccctcacg caaaacccg cacatgccc aacgctttg 
accatttcg ttgggtgga aacccttgg cgctgcgac 
tgtgttttc acgccagtc ttccaggaa atgctgcaa 
aaattcgca ccacaaatc cacgatttg agggaagtc 
aagtgttcg tatgttgaa ggcgacgaa aattcgctc 
ctaccgatt atcgaactg agccgaagt tcggtctgt 
agatccccg agcgaatat tccgtccag gctttagat 
cttttaaac ggcgttcta gcaagtcta attttactg 
attctagga aaattggct tatgattat tattatttt 
aaaaagacg gggcgactc ccctggatt gttacaaaa 
atgccttaa
    mRNA sequence
    • >TC030611 RA
      atgaaatcg tgcaattag taccaattt ggatcacct 
gcacaaaac acaccttga ctcgcgccg agagcaaat 
ctcctagtt tcgtggtcg cgccacaac ggccgggtt 
tgcgacgaa aatgtgtgc gattttgtg aaaaatgtt 
gacggtttt ctggcttat acttctcca ccttcttgc 
accaatcaa atgccagga ttgcatcct caaaacccc 
ccaccacct aacttgcgt cacccactt gccacacct 
agaaaatga atttccccc aaacatcac aattcttga 
actacgcga tattgaaca agatgagct tgacctcaa 
ctacatgat ccacaaata tccccaaat tgaaaacgt 
ttcgatcta tgacggcaa catcgtcag gctgaaatc 
accaaaccc cgccaataa gataaaagt tttacggtt 
ggtacgaat cggagtgga gaatattgg aaacaaatt 
ccttgcaaa tttccccaa tttagaaat tttggactt 
gcgggagaa ttttttaca aagtttagg gaatttttc 
ggtgggcaa attgaaaga attgtatct cgacggtaa 
cacttggaa ctgctcgca ggacctcaa ttgggtcct 
caaactcaa ccaaacaat agtcaagga cttgaacaa 
tttgacttg tcaggggaa tccccaccc gaacaagaa 
tctagtaac catagctcg cttcacaaa ggatttgaa 
aaacaattg cccctcgat atgttcgtg tactttacc 
caaagtcgt tttcacgaa aatgggttc ccaacgttt 
ggaacccct catcgaagt taactgttc ccaccgtgg 
tctcactca cttacccct cgacctccc cgcaaaatc 
tcgcataat ccaccttga aggcaacga aatcgaaga 
cttaaaacc ccttaaaca ccaccaaat ctaccgaaa 
agtcctcga cttgtacct cgacaacaa caaagtgaa 
aacgatcga agaactcga aggttccta ttttctcaa 
acatttccg ggtgttttc cctcagcgg aaacaaatt 
gacagaggt gccaaccta cgcacttga caatgccct 
cacgcaaaa cccgcacat gcccaacgc tttgaccat 
ttcgttggg tggaaaccc ttggcgctg cgactgtgt 
tttcacgcc agtcttcca ggaaatgct gcaaaaatt 
cgcaccaca aatccacga tttgaggga agtcaagtg 
ttcgtatgt tgaaggcga cgaaaattc gctcctacc 
gattatcga actgagccg aagttcggt ctgtagatc 
cccgagcga atattccgt ccaggcttt agatctttt 
aaacggcgt tctagcaag tctaatttt actgattct 
aggaaaatt ggcttatga ttattatta ttttaaaaa 
gacggggcg actcccctg gattgttac aaaaatgcc 
ttaatttat agtgtttta aattattgt tgtatctaa 
tgaataaat aagacttgg aaaa

    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