Status
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Gene information
General information
TC000177 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_007417.3: 15076486..15080189
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
    		TC000177
    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
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    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
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02989

    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
     abdomen irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen segment partially fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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: % (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
    • >TC000177 RA
      MADSDAARS AIRVAENMK VPNGPRVVT INKTETGFG 
FNVRGQVSE GGQLRSING ELYAPLQHV SAVLDRGAA 
EQAGIRKGD RILEVNGVN VEGATHKQV VDLIKSGGD 
VLTLTVISV TQQEAERLE PTDDNQVYY DYSEKRSLP 
ISIPDYHYN ERGGERYVA FNIYMAGRH LCSRRYREF 
SKLHVDLKK EFIGFTFPK LPGKWPFNL SEQQLDARR 
RGLEQYLER VCAVRVIAE SDIMQEFLT DQDDDNNSS 
PVDLKVLLP DREVVTVSL KKSANADEV YEAVVKKIG 
MNKRVSKYF YLFEIVEYN FERKLQPTE YPHNLYIQN 
YSTATSTCL CVRKWLFSL SKELTLMND TQATSYIFW 
QSVDEVNRG YINAGERLY QLKALQDNT RASEYLKLA 
RELPGYGEV VFPHCACDS RKDGHVIVA VGSGGIKLH 
ACREDGTLE SQVVGLQWD CIRQWEVDD EGMAFCLKY 
NRADKTPRW LKIFTPYHL YVMDCFDRI IEESKWLDT 
GE
    CDS sequence
    • >TC000177 RA
      atggccgac tctgatgcg gcccgaagt gcaataaga 
gtcgccgaa aacatgaaa gtgccaaat gggccccgt 
gttgtcacc ataaataaa acagagact gggttcggt 
tttaatgtc cgggggcaa gtgagcgaa gggggccaa 
ctgcgaagt atcaatggg gagttgtac gccccctta 
cagcatgtc agcgctgtg ttggacagg ggggctgcc 
gaacaggcc gggatacgc aaaggcgac cggattcta 
gaagtaaat ggtgtgaac gtggaagga gccacccac 
aagcaagtg gtggacttg ataaaatcc ggcggtgat 
gtgctcacc ctcaccgtc atatcagtg acacaacag 
gaggcggag cgtttggaa ccgactgat gataatcaa 
gtgtattat gattatagt gagaaacgt tcgttgccg 
attagtatt cccgattat cattacaac gaacgaggg 
ggtgaaagg tatgtggcg tttaatatt tacatggca 
gggcggcat ttgtgctca cgacggtat cgagagttc 
tctaagctg catgttgac ctcaagaag gagtttata 
gggttcact tttccgaaa ttgccaggc aagtggccg 
tttaattta agcgaacaa cagttggat gcacgtcga 
agaggcttg gagcagtac ttggagagg gtttgcgct 
gtgcgagtg attgccgag tctgatatt atgcaagag 
ttcctcact gatcaagac gatgataat aatagcagt 
ccagttgat cttaaagta ttacttccc gatcgtgaa 
gttgtcaca gtgtcgtta aaaaaaagc gccaacgct 
gacgaagtc tacgaagcc gttgtcaaa aaaatcggc 
atgaataaa cgcgtttcg aaatatttt tacttattt 
gaaattgtc gaatacaac ttcgaacgc aaactacaa 
cccaccgaa tacccgcat aacctctac atccagaac 
tacagtacg gcaacaagt acgtgtcta tgtgtccgt 
aaatggctc ttttcccta tcgaaagaa ctgactctt 
atgaatgac actcaagcc acttcgtac atcttttgg 
cagtcggtc gatgaggtg aatcgaggt tatataaac 
gccggcgag cgtttgtac caactcaaa gccctccaa 
gacaacact cgcgcttct gaatatttg aaattagcg 
cgcgaatta ccaggatat ggcgaggtg gtatttccc 
cattgcgca tgcgattcg cggaaagac ggtcacgtg 
attgtcgct gtggggagt gggggtata aaactacac 
gcgtgtcga gaggatggg actttggaa agtcaagtg 
gtggggctc caatgggat tgcataaga cagtgggag 
gtggatgat gaagggatg gccttttgt ttgaaatac 
aacagagcg gataagacg ccacgatgg ttgaagatt 
ttcacacct tatcatttg tatgtcatg gattgcttc 
gatcggatt attgaagag agcaagtgg ttggatacg 
ggcgagtga
    mRNA sequence
    • >TC000177 RA
      aaaatatgg ccgactctg atgcggccc gaagtgcaa 
taagagtcg ccgaaaaca tgaaagtgc caaatgggc 
cccgtgttg tcaccataa ataaaacag agactgggt 
tcggtttta atgtccggg ggcaagtga gcgaagggg 
gccaactgc gaagtatca atggggagt tgtacgccc 
ccttacagc atgtcagcg ctgtgttgg acagggggg 
ctgccgaac aggccggga tacgcaaag gcgaccgga 
ttctagaag taaatggtg tgaacgtgg aaggagcca 
cccacaagc aagtggtgg acttgataa aatccggcg 
gtgatgtgc tcaccctca ccgtcatat cagtgacac 
aacaggagg cggagcgtt tggaaccga ctgatgata 
atcaagtgt attatgatt atagtgaga aacgttcgt 
tgccgatta gtattcccg attatcatt acaacgaac 
gagggggtg aaaggtatg tggcgttta atatttaca 
tggcagggc ggcatttgt gctcacgac ggtatcgag 
agttctcta agctgcatg ttgacctca agaaggagt 
ttatagggt tcacttttc cgaaattgc caggcaagt 
ggccgttta atttaagcg aacaacagt tggatgcac 
gtcgaagag gcttggagc agtacttgg agagggttt 
gcgctgtgc gagtgattg ccgagtctg atattatgc 
aagagttcc tcactgatc aagacgatg ataataata 
gcagtccag ttgatctta aagtattac ttcccgatc 
gtgaagttg tcacagtgt cgttaaaaa aaagcgcca 
acgctgacg aagtctacg aagccgttg tcaaaaaaa 
tcggcatga ataaacgcg tttcgaaat atttttact 
tatttgaaa ttgtcgaat acaacttcg aacgcaaac 
tacaaccca ccgaatacc cgcataacc tctacatcc 
agaactaca gtacggcaa caagtacgt gtctatgtg 
tccgtaaat ggctctttt ccctatcga aagaactga 
ctcttatga atgacactc aagccactt cgtacatct 
tttggcagt cggtcgatg aggtgaatc gaggttata 
taaacgccg gcgagcgtt tgtaccaac tcaaagccc 
tccaagaca acactcgcg cttctgaat atttgaaat 
tagcgcgcg aattaccag gatatggcg aggtggtat 
ttccccatt gcgcatgcg attcgcgga aagacggtc 
acgtgattg tcgctgtgg ggagtgggg gtataaaac 
tacacgcgt gtcgagagg atgggactt tggaaagtc 
aagtggtgg ggctccaat gggattgca taagacagt 
gggaggtgg atgatgaag ggatggcct tttgtttga 
aatacaaca gagcggata agacgccac gatggttga 
agattttca caccttatc atttgtatg tcatggatt 
gcttcgatc ggattattg aagagagca agtggttgg 
atacgggcg agtgacttg aagtgtttt aaatacata 
ttatgttgt tgaactgta ttataattt atgctattt 
atgtgatgt atatttttg gttataaaa tgattcgag 
accataact tgttgaaat tattgtttt tgagagcac 
aagttattt attaggaaa ttttttaaa aaattcatg 
tgatagagt tattagtgt agatgaatt atctgtata 
tataggttt agtgttaca tgtgatcac ttctgttgt 
agtgggacc caattatct ttttgcact gccgttttt 
ttttttttc gttagtagt ctctctttc taggcttca 
aattctcct attttgagt ctcattcga caaaatgta 
tatacataa gataatcgc gtagctcaa ttaatttaa 
ttctagtgt ccaacagtc tagaatttt ttatattat 
tctaggatc catcaagtg tttatctaa taaaatatt 
tatttctgt tgatatcga ttccaaatt atattgtta 
ctatatggc atcttaaaa tttggctgt tacgcacta 
aattctaaa tatatac

    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