Status
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Gene information
General information
TC000027 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: 15880825..15891830
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
    		TC000027
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02964

    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: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    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
    • >TC000027 RA
      MYRTDKQFM TNPATAPSR IYIGGIPKT VVAADLEEK 
FKVHGKILG LVLQMGFAF IQFENESQS HAAIQNENN 
TMLHGRKIC VRQALDKTQ KGANNMNKQ MPNRRQGPP 
QHYNEGPYM PPPPHQFQI HPLPHQQGP RPHQQQGPP 
PHQQQGPPP HQQQGPPPH QQQGPPPHQ QQQFQKPPE 
EAPKPTPKP EPEKEQEQV PAAPLPNQP PPNMGPQKP 
PMVQEEPPK KEAPIERRG RKRRMRSRE RFSSDMYRE 
DGYYPSGKY SNRPPVIDQ PDRNDCEII VVSKQLTKY 
AEYIEQRLK ALGLIVDLL FPNEDVPIG RVLANISSR 
GCLYAILVM PQNEEHRSL TLNILHGNP QEHRNMPIE 
DALVLMTRN FDAYMRGDK TASEPTPGA IKSVSDRHP 
TAMQLLLNL LAENRQLTT VQYDRLMKY LQERREIQH 
QHEVSEGVD QDSQESNSK QAELQSRIM NILNKASTE 
IQPPAQEPT PSNDVAPPL LKDPSVQKA LDSLLGGEM 
FKNIGVV
    CDS sequence
    • >TC000027 RA
      atgtatcgc accgataaa cagttcatg accaatcct 
gcaacagcc ccctcgcgc atctacatc gggggcatc 
cccaagaca gtggtcgca gccgacttg gaagaaaaa 
ttcaaagta cacggaaaa atcctaggc cttgtcctc 
caaatgggc ttcgctttc atccaattc gaaaacgag 
agccaatcg catgccgcg attcaaaac gaaaacaac 
accatgctc cacggcaga aaaatctgc gtgagacaa 
gcgttagac aagacccaa aaaggggca aacaatatg 
aataaacaa atgccaaat cggagacaa ggcccccct 
cagcactac aacgagggg ccttacatg cccccgccc 
ccacaccag ttccaaatc cacccgctc ccacatcaa 
caggggccg cgcccacat caacagcaa gggccgcct 
ccgcatcaa cagcaagga ccacccccg catcagcaa 
caggggccg cctccacat caacagcag gggccaccg 
ccacatcaa cagcaacag ttccagaag cccccagaa 
gaggccccg aagcccacc cccaaaccc gaaccggag 
aaagagcaa gagcaagtc ccagctgcg ccgcttcca 
aaccagccg ccgcctaat atggggccc caaaaaccg 
ccaatggtg caggaggag cccccgaag aaggaggcg 
ccgatagag aggagaggg cggaagaga aggatgcgg 
agtcgggag cggttttcg tcagacatg tacagggag 
gacgggtat tatccttcg gggaagtac tcaaatcgg 
ccgcctgtt attgaccaa cctgacaga aatgactgc 
gaaattatt gtcgtctcg aagcagttg acgaaatac 
gccgagtat attgaacag agactgaaa gccttggga 
ctcatcgtg gatttgctg tttccaaac gaggatgtc 
cccattggc cgagtgttg gcgaatatt tcaagcaga 
ggctgtttg tatgcaatt ttggtcatg ccgcaaaat 
gaggaacac agaagtttg actcttaat attttacat 
gggaatccc caagagcac cggaatatg ccaatagaa 
gatgctttg gtcctaatg acacgaaat tttgatgct 
tatatgcgt ggagataaa acagcgtca gaaccgacc 
cctggggct attaaaagt gtttctgac agacatcca 
acagcaatg cagttgctg ttgaatttg ctggctgaa 
aaccgccag ttaacaaca gtccagtac gaccgattg 
atgaagtac ttacaagag cgccgcgaa attcaacac 
caacacgaa gtaagtgaa ggagtcgat caagactca 
caagaatct aacagcaaa caagccgaa cttcaaagt 
cgcatcatg aacatatta aataaagct tccactgag 
attcaaccg ccagctcaa gaaccgaca ccgtcaaat 
gacgttgca ccgccactt ctgaaagat ccttccgtt 
caaaaggcg ctggatagt cttttaggt ggtgaaatg 
tttaaaaat attggtgtg gtgtaa
    mRNA sequence
    • >TC000027 RA
      aatcggtgt taatcgcaa gtattttct gttcgttta 
ttgtgtttt gtgatttgc gtttcgtta ggcaaccaa 
ccaaactgt gatggcatt tgatgccaa aacaacaga 
gtaaggtta tgtacaatt gtgtttgaa tatttgtat 
atttatgga ttttctgta ttttaaaag tacatatct 
gtgattgtg ggttcactt ttgcaggtg tagtgttac 
tttgtgtgc cgggaaatg taataaaac gcaattttg 
tccgaaaaa aattgtgcg cctagaatc aacattcct 
actccacaa gtctcaaat ctgcttaaa agttaatac 
aattcaaga tgtatcgca ccgataaac agttcatga 
ccaatcctg caacagccc cctcgcgca tctacatcg 
ggggcatcc ccaagacag tggtcgcag ccgacttgg 
aagaaaaat tcaaagtac acggaaaaa tcctaggcc 
ttgtcctcc aaatgggct tcgctttca tccaattcg 
aaaacgaga gccaatcgc atgccgcga ttcaaaacg 
aaaacaaca ccatgctcc acggcagaa aaatctgcg 
tgagacaag cgttagaca agacccaaa aaggggcaa 
acaatatga ataaacaaa tgccaaatc ggagacaag 
gcccccctc agcactaca acgaggggc cttacatgc 
ccccgcccc cacaccagt tccaaatcc acccgctcc 
cacatcaac aggggccgc gcccacatc aacagcaag 
ggccgcctc cgcatcaac agcaaggac cacccccgc 
atcagcaac aggggccgc ctccacatc aacagcagg 
ggccaccgc cacatcaac agcaacagt tccagaagc 
ccccagaag aggccccga agcccaccc ccaaacccg 
aaccggaga aagagcaag agcaagtcc cagctgcgc 
cgcttccaa accagccgc cgcctaata tggggcccc 
aaaaaccgc caatggtgc aggaggagc ccccgaaga 
aggaggcgc cgatagaga ggagagggc ggaagagaa 
ggatgcgga gtcgggagc ggttttcgt cagacatgt 
acagggagg acgggtatt atccttcgg ggaagtact 
caaatcggc cgcctgtta ttgaccaac ctgacagaa 
atgactgcg aaattattg tcgtctcga agcagttga 
cgaaatacg ccgagtata ttgaacaga gactgaaag 
ccttgggac tcatcgtgg atttgctgt ttccaaacg 
aggatgtcc ccattggcc gagtgttgg cgaatattt 
caagcagag gctgtttgt atgcaattt tggtcatgc 
cgcaaaatg aggaacaca gaagtttga ctcttaata 
ttttacatg ggaatcccc aagagcacc ggaatatgc 
caatagaag atgctttgg tcctaatga cacgaaatt 
ttgatgctt atatgcgtg gagataaaa cagcgtcag 
aaccgaccc ctggggcta ttaaaagtg tttctgaca 
gacatccaa cagcaatgc agttgctgt tgaatttgc 
tggctgaaa accgccagt taacaacag tccagtacg 
accgattga tgaagtact tacaagagc gccgcgaaa 
ttcaacacc aacacgaag taagtgaag gagtcgatc 
aagactcac aagaatcta acagcaaac aagccgaac 
ttcaaagtc gcatcatga acatattaa ataaagctt 
ccactgaga ttcaaccgc cagctcaag aaccgacac 
cgtcaaatg acgttgcac cgccacttc tgaaagatc 
cttccgttc aaaaggcgc tggatagtc ttttaggtg 
gtgaaatgt ttaaaaata ttggtgtgg tgtaaaatt 
cgtcaaata aaatgtcct actcgac

    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