Status
Please wait ...
Gene information
General information
TC000412 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: 11817328..11820089
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
    		TC000412
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00088

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 5 (3 dpi)
    Days post injection

    Fertility
    egg chamber mostly not present - Number of animals showing the phenotype: 4

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    cuticle remnants with some identifiable segments - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 62.5% (includes death as larva, prepupa, pupa, adult)

    adult lethality immediately after eclosion - Number of animals showing the phenotype: 3 (19 dpi)
    Days post injection

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

    adult lethality - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection

    low validity due to technical reasons - should be repeated: stink gland phenotype not scorable, adult phenotype not scorable, lethality not scorable,
    adult progeny in the well
    Pupal morphology
    elytra partially blistered - Number of animals showing the phenotype: 3

    Adult morphology
    elytra not closed - Number of animals showing the phenotype: 5 (22 dpi)
    Days post injection


    motility decreased - (22 dpi)
    Days post injection

    low validity due to technical reasons - should be repeated: stink gland phenotype not scorable, adult phenotype not scorable, lethality not scorable,
    adult progeny in the well
    Fertility
    egg production: number no/almost no eggs -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000412 RA
      MNAGYYAHS SPSRESGVV SDCDTMAEL AALLRSEIP 
EGRSNLTDN HTNLERVAE YCEANYFQS NNKRVALEE 
TKNYTTQSL ASVAYQINT LAFNFLQLL ELQAAQLAE 
MESQMNHIS QTVMIHKEK VARREIGVL TANKSTSRQ 
YKIIAPANP EKPIKYLRK PIDYNIFDD IGHGVRSSG 
TPRQQKQRG SSQGSIQSL TANPMVGPA PTTKPPTPP 
QVSRTSSKV SVSGGTLSK GSREYRTPP AVAPPQVPS 
HYAPNYPIG HARRSTERG PGYSTLPMA PGQHQAMSP 
PQVGMVHPM SINQQQHQN QQHPQTPPP PPPPGNVGN 
YIQAEHHMS MPPPPSPLI SQEMQMPSN QHHPMMMTQ 
HAPVPHGSL GMHTLSHAH GQRLARSSG AHSPPLPPP 
PPPEDEHEA FGRPRTSGV MPIVPDEED LPGWVPKNY 
IEKVVAIYD YYADKDDEL SFQESSVIY VLKKNDDGW 
WEGVMDGIT GLFPGNYVE PCV
    CDS sequence
    • >TC000412 RA
      atgaatgct ggatactac gcccacagc agccccagt 
cgagaatct ggagttgta agtgactgt gacacaatg 
gccgaactt gcagccttg ctgcgctcc gaaatccca 
gaggggcgc agcaacctg accgacaac cacacgaac 
ctggaaagg gttgccgaa tattgcgaa gctaactat 
ttccagtcg aataacaag cgcgtggct ttggaagaa 
accaaaaac tacacaaca cagtctttg gcaagtgtg 
gcctaccag atcaacaca ctcgctttc aattttctg 
caactgttg gagttgcaa gcggcacag ctggccgag 
atggagagc cagatgaac cacatctcg caaacggtg 
atgatccac aaggagaag gttgcaagg cgcgagatt 
ggagtgttg acggccaac aagtcaacc agccgacag 
tataaaatc atcgcgcct gctaacccg gagaaaccc 
atcaagtac ctccggaaa ccgattgac tacaacatt 
ttcgatgat atcgggcat ggggtgcgg agcagtggg 
acccccaga cagcaaaaa cagaggggt tccagtcag 
ggtagcatc cagtcgctc acggccaat cccatggtg 
ggcccagca cccaccacc aaaccgcca acgcctccg 
caagtatca agaacatca agtaaagtt tctgtttcg 
ggaggtacg ttgagtaaa ggcagtcgc gaatatcgt 
actcctcca gcggtggcg cctcctcag gttcctagt 
cactacgcc cccaattat cccattggc catgcaaga 
cgttcgacc gaaaggggg cccgggtac agcactttg 
cccatggct ccaggtcaa catcaggcg atgtcgcca 
ccacaagtt ggcatggta catcccatg agtataaat 
caacagcaa caccaaaac caacaacat cctcaaaca 
ccaccgccg ccgcctccg cccggtaat gtgggaaac 
tacatccaa gcggagcac catatgagc atgccgccg 
ccgccttcg ccgttgatc agccaagaa atgcaaatg 
ccgtcgaac cagcaccac ccgatgatg atgacccag 
catgcccca gtgccgcat ggaagcctg ggaatgcac 
actttgtcc catgcccat ggccaacgg cttgcccga 
agtagcggt gcacattcg cctccattg cctcctcca 
ccgccgcca gaagacgaa cacgaggct tttggcaga 
cctcgtacg agtggagtc atgcccatt gtgcccgat 
gaggaggat ttgcccgga tgggtaccc aagaattat 
atagagaaa gttgtggcg atttacgat tattacgct 
gataaagat gatgaattg agtttccaa gaaagttcg 
gttatttat gtgctgaag aaaaatgat gatggttgg 
tgggaaggt gtcatggat ggaattacg ggattgttt 
cctgggaat tacgtggaa ccttgtgta taa
    mRNA sequence
    • >TC000412 RA
      atacgttgc tatcttgtc atccggttg acatttata 
atttccaaa atcgttttt tttaatcca gtgaaaaat 
tttgtgtac gtaaacata aattacgtt cctcttaat 
agtttcctt gtgttgcaa cttcgccta tttcaacca 
atactatgc taactccga ttttagtgt ttgcctctt 
gtctgttat gaatgctgg atactacgc ccacagcag 
ccccagtcg agaatctgg agttgtaag tgactgtga 
cacaatggc cgaacttgc agccttgct gcgctccga 
aatcccaga ggggcgcag caacctgac cgacaacca 
cacgaacct ggaaagggt tgccgaata ttgcgaagc 
taactattt ccagtcgaa taacaagcg cgtggcttt 
ggaagaaac caaaaacta cacaacaca gtctttggc 
aagtgtggc ctaccagat caacacact cgctttcaa 
ttttctgca actgttgga gttgcaagc ggcacagct 
ggccgagat ggagagcca gatgaacca catctcgca 
aacggtgat gatccacaa ggagaaggt tgcaaggcg 
cgagattgg agtgttgac ggccaacaa gtcaaccag 
ccgacagta taaaatcat cgcgcctgc taacccgga 
gaaacccat caagtacct ccggaaacc gattgacta 
caacatttt cgatgatat cgggcatgg ggtgcggag 
cagtgggac ccccagaca gcaaaaaca gaggggttc 
cagtcaggg tagcatcca gtcgctcac ggccaatcc 
catggtggg cccagcacc caccaccaa accgccaac 
gcctccgca agtatcaag aacatcaag taaagtttc 
tgtttcggg aggtacgtt gagtaaagg cagtcgcga 
atatcgtac tcctccagc ggtggcgcc tcctcaggt 
tcctagtca ctacgcccc caattatcc cattggcca 
tgcaagacg ttcgaccga aagggggcc cgggtacag 
cactttgcc catggctcc aggtcaaca tcaggcgat 
gtcgccacc acaagttgg catggtaca tcccatgag 
tataaatca acagcaaca ccaaaacca acaacatcc 
tcaaacacc accgccgcc gcctccgcc cggtaatgt 
gggaaacta catccaagc ggagcacca tatgagcat 
gccgccgcc gccttcgcc gttgatcag ccaagaaat 
gcaaatgcc gtcgaacca gcaccaccc gatgatgat 
gacccagca tgccccagt gccgcatgg aagcctggg 
aatgcacac tttgtccca tgcccatgg ccaacggct 
tgcccgaag tagcggtgc acattcgcc tccattgcc 
tcctccacc gccgccaga agacgaaca cgaggcttt 
tggcagacc tcgtacgag tggagtcat gcccattgt 
gcccgatga ggaggattt gcccggatg ggtacccaa 
gaattatat agagaaagt tgtggcgat ttacgatta 
ttacgctga taaagatga tgaattgag tttccaaga 
aagttcggt tatttatgt gctgaagaa aaatgatga 
tggttggtg ggaaggtgt catggatgg aattacggg 
attgtttcc tgggaatta cgtggaacc ttgtgtata 
atttactaa ttaggtttc cgcacgtaa taattatgc 
aaatcaatt attaatgtt attaagtgt aacccgact 
ttaaagaaa attcttcaa agtgtctag aatgaaact 
ttgtgtaga tgttttaca gttctgtag acggtatga 
tggtaattg tataattta tattatttt tctccaaac 
gtttgtaat acatttata agtaataaa aattctata 
tcata

    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