Status
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Gene information
General information
TC001366 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: 15098031..15099842
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
    		TC001366
    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
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    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_00246

    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: 70.0% (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 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
    • >TC001366 RA
      MSALRLNKN LLKRCKKFK CFSTAVLQE DEYTATPQY 
PPILDMSPE KVRERRKEE EYEGIKAVK TVEEKQIKL 
NMPKYYGFK SYMLYEDYI PYNSLPLIQ HVTRTHLIK 
NENLPNFYN DLDVTSALN DVKSDIEEA ILIELARHR 
QTLDLQGDK VEADNRLGF ALSKQINRI ITTRMSRHL 
PHLKGAQVD LNSRIKSFW LAGGMSPPE NIKRYRRGC 
SWQKDKENE PTNRVMNYI GSANVSLRT DLPLKHIIS 
SSDAESPDL SVPFFEFDP RTVGTVANQ HRHIANVPG 
FWPGDSREF GFLSYHKRG HLISRHYGD ANELKEAVD 
RQGILASFG WLNAQANFQ GFTTFNDVT YPFVTQTVV 
TNGQVWSFY VYQLNTIVN HSKFFTENA KRNVCWGTP 
EVKLFEGVE NDKLVGFND EVLKMLLKF YANVPEVKL 
GVNLKPFLG KEEKFIADY EDGDKREWL EREYKFLVS 
NRPRAKLEY EIYAWEKIY KIDHQTRFM DQKKRPFEF 
KIKPSNRRL DERLPRYIP RALRPELPR HKGRYAKEY 
FP
    CDS sequence
    • >TC001366 RA
      atgtcggct ttaagactc aacaaaaac cttttaaag 
cgttgcaaa aagtttaaa tgcttttcg acggctgtt 
ttgcaagaa gatgagtac acggctacg ccccagtac 
ccaccaatt ctcgacatg agcccagaa aaggtccga 
gagcgcaga aaagaagaa gagtatgaa ggaatcaaa 
gctgtgaag acagtcgag gaaaaacag attaaatta 
aacatgcct aaatattac ggtttcaaa agctacatg 
ttgtacgaa gattacatc ccttacaac agtttgccg 
ttaattcag cacgtcaca aggacacat ttgattaaa 
aacgaaaat ttgccgaac ttttacaac gatttggac 
gttacaagt gccctaaac gatgtaaaa tcggacatt 
gaggaagct attttgatc gaattggcg agacataga 
caaactctt gatttacaa ggggacaaa gtggaggct 
gacaaccgc ctcggattt gccttgtcc aaacaaatc 
aaccgaata atcacaact cgaatgagt cgccacttg 
ccgcattta aaaggggcc caggttgat ttaaactca 
agaattaag tcgttttgg ctcgcgggg ggcatgagc 
cctcctgag aacatcaaa cgatacaga aggggttgc 
tcatggcaa aaagacaaa gaaaatgag ccaacaaac 
cgagtcatg aattacatc ggttcagca aacgtatct 
ttaagaacc gacttgccc ttgaaacac attatttca 
tcaagcgat gcggaaagt cccgacttg agtgttcca 
ttttttgaa tttgatccg cgaactgtc ggcactgtg 
gccaatcag catcgccac atcgccaac gttccaggt 
ttctggcct ggtgattcc agggagttt ggttttttg 
tcgtaccac aagcgcggc catttgatt tcgcggcac 
tacggtgat gctaatgag cttaaggaa gctgttgac 
cgacagggg attttagcg tcatttggt tggctgaac 
gcacaagcc aactttcag ggttttacc acatttaat 
gacgtcacg tatccgttt gtgacgcaa actgtggtc 
acaaatggg caagtttgg tcgttttat gtctaccaa 
cttaacact attgttaat cattctaag ttttttacg 
gaaaatgcg aaacgaaat gtgtgttgg ggaaccccc 
gaggttaag ttgtttgaa ggggtggag aatgataag 
ttggttggg tttaatgat gaggttttg aaaatgttg 
ctgaaattt tatgccaac gtgcctgag gtgaaacta 
ggcgttaat ttgaagccg tttttgggg aaagaagag 
aagtttatc gctgattat gaggatggg gataagaga 
gaatggctt gagagggag tataaattt ttagtatca 
aataggccg agggctaaa ctcgagtat gagatttac 
gcttgggaa aaaatttat aaaattgat caccagacg 
aggtttatg gatcagaag aaaaggcct tttgagttt 
aaaattaaa ccgtcgaat agaaggctg gatgagcga 
ttaccgagg tatattccg agggctttg aggcccgag 
ttgccacga cataaagga cgatacgcc aaggagtat 
ttcccctaa
    mRNA sequence
    • >TC001366 RA
      aatgattcc taacctcac attgaaaaa tgtcggctt 
taagactca acaaaaacc ttttaaagc gttgcaaaa 
agtttaaat gcttttcga cggctgttt tgcaagaag 
atgagtaca cggctacgc cccagtacc caccaattc 
tcgacatga gcccagaaa aggtccgag agcgcagaa 
aagaagaag agtatgaag gaatcaaag ctgtgaaga 
cagtcgagg aaaaacaga ttaaattaa acatgccta 
aatattacg gtttcaaaa gctacatgt tgtacgaag 
attacatcc cttacaaca gtttgccgt taattcagc 
acgtcacaa ggacacatt tgattaaaa acgaaaatt 
tgccgaact tttacaacg atttggacg ttacaagtg 
ccctaaacg atgtaaaat cggacattg aggaagcta 
ttttgatcg aattggcga gacatagac aaactcttg 
atttacaag gggacaaag tggaggctg acaaccgcc 
tcggatttg ccttgtcca aacaaatca accgaataa 
tcacaactc gaatgagtc gccacttgc cgcatttaa 
aaggggccc aggttgatt taaactcaa gaattaagt 
cgttttggc tcgcggggg gcatgagcc ctcctgaga 
acatcaaac gatacagaa ggggttgct catggcaaa 
aagacaaag aaaatgagc caacaaacc gagtcatga 
attacatcg gttcagcaa acgtatctt taagaaccg 
acttgccct tgaaacaca ttatttcat caagcgatg 
cggaaagtc ccgacttga gtgttccat tttttgaat 
ttgatccgc gaactgtcg gcactgtgg ccaatcagc 
atcgccaca tcgccaacg ttccaggtt tctggcctg 
gtgattcca gggagtttg gttttttgt cgtaccaca 
agcgcggcc atttgattt cgcggcact acggtgatg 
ctaatgagc ttaaggaag ctgttgacc gacagggga 
ttttagcgt catttggtt ggctgaacg cacaagcca 
actttcagg gttttacca catttaatg acgtcacgt 
atccgtttg tgacgcaaa ctgtggtca caaatgggc 
aagtttggt cgttttatg tctaccaac ttaacacta 
ttgttaatc attctaagt tttttacgg aaaatgcga 
aacgaaatg tgtgttggg gaacccccg aggttaagt 
tgtttgaag gggtggaga atgataagt tggttgggt 
ttaatgatg aggttttga aaatgttgc tgaaatttt 
atgccaacg tgcctgagg tgaaactag gcgttaatt 
tgaagccgt ttttgggga aagaagaga agtttatcg 
ctgattatg aggatgggg ataagagag aatggcttg 
agagggagt ataaatttt tagtatcaa ataggccga 
gggctaaac tcgagtatg agatttacg cttgggaaa 
aaatttata aaattgatc accagacga ggtttatgg 
atcagaaga aaaggcctt ttgagttta aaattaaac 
cgtcgaata gaaggctgg atgagcgat taccgaggt 
atattccga gggctttga ggcccgagt tgccacgac 
ataaaggac gatacgcca aggagtatt tcccctaaa 
acttggcaa atttgtcaa tagattgta atacaaata 
aaataataa aaaagtaaa acaaaa

    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