Status
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Gene information
General information
TC009035 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_007422.5: 8322587..8324358
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
    		TC009035
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01461

    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: 10.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

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

    vitellogenic egg chamber mostly not present - Number of animals showing the phenotype: 4
    mature egg complete not present - Number of animals showing the phenotype: 4
    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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 4 (16 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    Pupal morphology
    wings blistered - Number of animals showing the phenotype: 2

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009035 RA
      MREIVHIQA GQCGNQIGA KFWEVISDE HGIDPTGTY 
HGDSDLQLE RINVYYNEA TGGKYVPRA ILVDLEPGT 
MDSVRSGPF GQIFRPDNF VFGQSGAGN NWAKGHYTE 
GAELVDSVL DVVRKEAEG CDCMQGFQL THSLGGGTG 
SGLGTLLIS KIREEYPDR IMNTFSVVP SPKVSDTVV 
EPYNATLSV HQLVENTDE TYCIDNEAL YDICFRTLK 
LTTPTYGDL NHLVSATMS GVTTCLRFP GQLNSDLRK 
LAVNMVPFP RLHFFMPGF APLTSRGSQ QYRALTVPE 
LVMQMFDAK NMMAACDPR HGRYLTVAA IFRGRMSMK 
EVDEQMLNI QNKNSSYFV EWIPNNVKT AVCDIPPRG 
LKMSSTFIG NSTCIQELF KRISEQFTA MFRRKAFLH 
WYTGEGMDE MEFTEAESN MNDLVAEYQ QYQDATAEE 
EGEFDEEEE GDNEGEN
    CDS sequence
    • >TC009035 RA
      atgcgagaa atagtccac atacaagca ggtcaatgc 
ggcaatcaa ataggagca aagttttgg gaagtgatc 
tcagatgag catggaatc gaccctacg gggacatat 
cacggggat tcggacctc cagctggag cgaatcaac 
gtctactac aatgaggcg accggcggg aaatatgtc 
cctcgcgcc atcctcgta gacctggag cccggcacc 
atggactcg gtcaggtcc ggtcccttc ggccagatt 
ttccggccg gacaacttc gttttcggc cagtccgga 
gccgggaac aactgggcc aagggccac tacaccgaa 
ggggccgag ctggtggac tcggtgctg gacgtggtg 
cgcaaggag gccgagggc tgcgactgc atgcagggc 
ttccagctg acgcactcg ctgggaggg ggcaccggc 
tcggggctg ggcaccctc ctcatttcg aaaatcaga 
gaggagtac cccgatcgc atcatgaac accttctcc 
gtagtgccg tccccgaag gtctccgac actgtcgtg 
gagccctac aatgccacc ctctccgta catcagctc 
gtagaaaac acagacgag acgtactgc atcgacaat 
gaggctctc tacgacatc tgcttcagg actctcaaa 
ctcacgacc cccacctac ggggatttg aaccacctg 
gtgtcggca accatgtct ggggtcacc acttgtctc 
cgcttcccg ggccagctg aactcagat ttgaggaaa 
ttggccgtg aatatggtg ccgttcccc cgactccac 
ttctttatg ccgggcttt gcccccctg acttccaga 
gggagccag caatatcgg gctttaacc gtccccgag 
ttggtcatg cagatgttc gacgctaag aacatgatg 
gccgcttgc gaccccaga catgggcgc tacttaacc 
gtggccgcc atcttcaga ggaagaatg tccatgaag 
gaggtggac gagcagatg ctcaatatc cagaacaag 
aacagcagc tactttgtc gagtggatc cccaacaac 
gtcaagacc gctgtgtgt gacattccc cctcgcggc 
ttaaaaatg tcgtcgact tttattgga aattctaca 
tgtattcaa gaattgttt aagaggatt tcggaacag 
ttcaccgca atgtttaga agaaaggca tttttgcat 
tggtacact ggcgaaggc atggacgaa atggagttt 
actgaggct gagagcaac atgaatgat ttagttgcg 
gagtaccaa cagtaccaa gacgccacc gccgaagag 
gaaggagaa tttgacgag gaagaagaa ggcgacaac 
gaaggagaa aattaa
    mRNA sequence
    • >TC009035 RA
      acgcgaatt taaaattcc gaaagaggc ggcagtttt 
gaaacaaca tctgctaca tggttacga gtttgttta 
ctccaattt tcggtattt ctttaataa atttgttta 
acgttaaag taaaatgcg agaaatagt ccacataca 
agcaggtca atgcggcaa tcaaatagg agcaaagtt 
ttgggaagt gatctcaga tgagcatgg aatcgaccc 
tacggggac atatcacgg ggattcgga cctccagct 
ggagcgaat caacgtcta ctacaatga ggcgaccgg 
cgggaaata tgtccctcg cgccatcct cgtagacct 
ggagcccgg caccatgga ctcggtcag gtccggtcc 
cttcggcca gattttccg gccggacaa cttcgtttt 
cggccagtc cggagccgg gaacaactg ggccaaggg 
ccactacac cgaaggggc cgagctggt ggactcggt 
gctggacgt ggtgcgcaa ggaggccga gggctgcga 
ctgcatgca gggcttcca gctgacgca ctcgctggg 
agggggcac cggctcggg gctgggcac cctcctcat 
ttcgaaaat cagagagga gtaccccga tcgcatcat 
gaacacctt ctccgtagt gccgtcccc gaaggtctc 
cgacactgt cgtggagcc ctacaatgc caccctctc 
cgtacatca gctcgtaga aaacacaga cgagacgta 
ctgcatcga caatgaggc tctctacga catctgctt 
caggactct caaactcac gacccccac ctacgggga 
tttgaacca cctggtgtc ggcaaccat gtctggggt 
caccacttg tctccgctt cccgggcca gctgaactc 
agatttgag gaaattggc cgtgaatat ggtgccgtt 
cccccgact ccacttctt tatgccggg ctttgcccc 
cctgacttc cagagggag ccagcaata tcgggcttt 
aaccgtccc cgagttggt catgcagat gttcgacgc 
taagaacat gatggccgc ttgcgaccc cagacatgg 
gcgctactt aaccgtggc cgccatctt cagaggaag 
aatgtccat gaaggaggt ggacgagca gatgctcaa 
tatccagaa caagaacag cagctactt tgtcgagtg 
gatccccaa caacgtcaa gaccgctgt gtgtgacat 
tccccctcg cggcttaaa aatgtcgtc gacttttat 
tggaaattc tacatgtat tcaagaatt gtttaagag 
gatttcgga acagttcac cgcaatgtt tagaagaaa 
ggcattttt gcattggta cactggcga aggcatgga 
cgaaatgga gtttactga ggctgagag caacatgaa 
tgatttagt tgcggagta ccaacagta ccaagacgc 
caccgccga agaggaagg agaatttga cgaggaaga 
agaaggcga caacgaagg agaaaatta accgatttt 
tgaaaattt gcaagttga acggtgtat tggaccgat 
ttatgatgt tatattgta ttttttgta atagatagt 
aaatttttc aacaaattt ttcaattaa ctacactta 
taaattcta aattaaatt tcgtgggca tcaaattgg 
ttttcctct ctagaataa ataaggaac ttaattact 
accccaaat gaaaaggca ttgggtttt tgatatttg 
cgggttgtt gcataaata aagttataa cgaacaa

    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