Status
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Gene information
General information
TC006241 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: 5547861..5555737
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
    		TC006241
    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_04098

    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: 50.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 5 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): less than 30%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larva anterior not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva dorsal not closed - Penetrance (percentage of animals/eggs on slide): less than 30%
    head mostly not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 70.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    adult nutritional state - Number of animals showing the phenotype: 3 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006241 RA
      MLRRFLSLA FLIGAVFTY PNEPKATKN TEKPIITTP 
LGQVQGAIL ASRAGKPII SFRGIRYAK APIDELRFK 
PPVPVPKWE NVVNATQDT PLCPQPTDE PTSEDCLFL 
NVYTTKLPK GNEQPKRPV IVFIHSGGF HSTGGASNW 
LGPQYLLDQ DIVLVTFNY RLGSLGFLS TGDKEAPGN 
NGLKDQVLV LKWVKENIA SFGGDPESV TLAGYSAGA 
ISVTLHLVS PLSRGLFHR AIIMSGSAL GQMPIPTNQ 
MNLAKKQAK VLECSDDNS ANIIKCLKT KTANQLGES 
QRMFLEFGD DPVVIWGPV IEGDFGQER FLTAHPIEL 
IQKGEFAKV PIILGVTTD EFAARAFNV LANETLKKQ 
MSEDFQKIA PIAFLYDRD SDKSKTISD GLKKFYLND 
KPLDNSSLP GLAQLYADA LTGFGVNRA AELLSEKNN 
ASVYYYKFN YKGRYSHFY LPSSNGTIP FGVVHNDDL 
IYLFYIQKL FPIFKDTDP EAQTVNKMI LLWSNFAKT 
GNPTPETSD KLDGAKWEP YSSKNKKYL EVGNKLVLG 
EKLNEKRYE EWAKLFPLS QYTS
    CDS sequence
    • >TC006241 RA
      atgttgagg cggttttta agtttagcg tttctaatt 
ggcgcggtt tttacttac ccgaatgag cccaaagca 
actaaaaat accgaaaaa cccattatt actacgcca 
ctggggcaa gtgcaaggg gccattttg gcctcaagg 
gcggggaaa cccattatc tctttcagg gggattaga 
tatgccaaa gctccaatt gacgagttg aggtttaag 
ccccctgta cctgtcccc aaatgggaa aacgtggtc 
aacgccacc caagacacc cccttgtgc ccccaaccg 
actgacgaa cccacttca gaagactgt cttttcctc 
aacgtttac accacaaaa ctgcctaag ggcaacgag 
cagcccaaa cgccccgtc attgtcttc atccattct 
gggggcttc catagcact gggggagcc agcaattgg 
ctgggcccc caatacctc ctggaccaa gacatcgtc 
cttgtaact ttcaactat cgactcgga tcgttgggt 
ttcctaagc actggggac aaggaagct cctggaaac 
aacggtctt aaagaccaa gttttggtc ctcaagtgg 
gtcaaagag aatattgcg tcgtttgga ggtgatcca 
gaatcggtg actttggcg gggtacagc gcaggggct 
atcagtgtg acccttcac ttggtctca cccctgtca 
agggggcta ttccatagg gctataatc atgagtggg 
tcggcgcta ggccaaatg ccaatcccc acaaatcaa 
atgaatttg gccaagaaa caagccaaa gttttggaa 
tgtagtgat gataactca gccaatatt atcaaatgt 
ttgaagacc aaaactgca aatcagttg ggggagtcc 
cagaggatg tttctggag tttggggat gatccagtt 
gtgatttgg gggcctgtg attgaaggg gacttcgga 
caggagagg tttttgacc gctcatcca attgagttg 
atacaaaag ggagaattt gcaaaagtt ccgattatt 
ttgggggtt acaactgat gagtttgcc gcaagagct 
ttcaatgtt ttggccaac gaaacgttg aagaagcag 
atgagtgaa gacttccaa aaaatcgcc cctattgcc 
ttcctctac gaccgagat tcggacaaa tcgaaaaca 
atcagtgat ggcctcaag aaattttat ttgaacgat 
aaaccttta gacaactcg tctttgccc ggcttggcc 
caactttac gccgacgct ttgaccggc tttggagtc 
aacagagcc gcagaactt ttatcagaa aaaaacaac 
gcctcggtt tattactac aaatttaat tacaaggga 
cgctacagc cacttttac ctaccctca agtaacgga 
acaatcccg ttcggtgtt gtgcacaac gacgattta 
atttacctg ttctacatc cagaaactg ttcccgatt 
ttcaaagac acggacccc gaagcccaa actgtgaac 
aagatgatt ttgctttgg tccaatttt gccaaaact 
ggaaatccg actcctgag accagtgat aagctggat 
ggggccaaa tgggagcct tacagttcc aaaaataag 
aagtatttg gaggttggc aacaagttg gttctcggg 
gaaaaactg aacgagaag agatacgag gagtgggcc 
aaattgttt cctctgagc caatacaca tcgtaa
    mRNA sequence
    • >TC006241 RA
      tcccttttg tgtcccatc tctataaaa gcgagcgac 
tgtagcaaa tattttagt ttcgccact agtcgtgct 
atgtttgat tgtgcaaaa tgttgaggc ggtttttaa 
gtttagcgt ttctaattg gcgcggttt ttacttacc 
cgaatgagc ccaaagcaa ctaaaaata ccgaaaaac 
ccattatta ctacgccac tggggcaag tgcaagggg 
ccattttgg cctcaaggg cggggaaac ccattatct 
ctttcaggg ggattagat atgccaaag ctccaattg 
acgagttga ggtttaagc cccctgtac ctgtcccca 
aatgggaaa acgtggtca acgccaccc aagacaccc 
ccttgtgcc cccaaccga ctgacgaac ccacttcag 
aagactgtc ttttcctca acgtttaca ccacaaaac 
tgcctaagg gcaacgagc agcccaaac gccccgtca 
ttgtcttca tccattctg ggggcttcc atagcactg 
ggggagcca gcaattggc tgggccccc aatacctcc 
tggaccaag acatcgtcc ttgtaactt tcaactatc 
gactcggat cgttgggtt tcctaagca ctggggaca 
aggaagctc ctggaaaca acggtctta aagaccaag 
ttttggtcc tcaagtggg tcaaagaga atattgcgt 
cgtttggag gtgatccag aatcggtga ctttggcgg 
ggtacagcg caggggcta tcagtgtga cccttcact 
tggtctcac ccctgtcaa gggggctat tccataggg 
ctataatca tgagtgggt cggcgctag gccaaatgc 
caatcccca caaatcaaa tgaatttgg ccaagaaac 
aagccaaag ttttggaat gtagtgatg ataactcag 
ccaatatta tcaaatgtt tgaagacca aaactgcaa 
atcagttgg gggagtccc agaggatgt ttctggagt 
ttggggatg atccagttg tgatttggg ggcctgtga 
ttgaagggg acttcggac aggagaggt ttttgaccg 
ctcatccaa ttgagttga tacaaaagg gagaatttg 
caaaagttc cgattattt tgggggtta caactgatg 
agtttgccg caagagctt tcaatgttt tggccaacg 
aaacgttga agaagcaga tgagtgaag acttccaaa 
aaatcgccc ctattgcct tcctctacg accgagatt 
cggacaaat cgaaaacaa tcagtgatg gcctcaaga 
aattttatt tgaacgata aacctttag acaactcgt 
ctttgcccg gcttggccc aactttacg ccgacgctt 
tgaccggct ttggagtca acagagccg cagaacttt 
tatcagaaa aaaacaacg cctcggttt attactaca 
aatttaatt acaagggac gctacagcc acttttacc 
taccctcaa gtaacggaa caatcccgt tcggtgttg 
tgcacaacg acgatttaa tttacctgt tctacatcc 
agaaactgt tcccgattt tcaaagaca cggaccccg 
aagcccaaa ctgtgaaca agatgattt tgctttggt 
ccaattttg ccaaaactg gaaatccga ctcctgaga 
ccagtgata agctggatg gggccaaat gggagcctt 
acagttcca aaaataaga agtatttgg aggttggca 
acaagttgg ttctcgggg aaaaactga acgagaaga 
gatacgagg agtgggcca aattgtttc ctctgagcc 
aatacacat cgtaacttt ttacatact tacttgtat 
tttactgaa agtctgcgt aaataaagg tttttgtac 
tgg

    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