Status
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Gene information
General information
TC008569 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: 1481056..1490141
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
    		TC008569
    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_01366

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008569 RA
      MVVTSIARR LLFFIFYNA VLATAFHWD YKHEDEWPD 
QCQKGKQQS PINLSRQMA TETLFPSFI FEYYDEIYR 
AEIKNSGHT AQIQLKVAV KPKVSGGGL LSTYVLDNM 
HFHWNSEHT INEERFPLE LHLVHYDST KKSLAEALK 
VKGGVAVLA VFFYLSPDS DSEFDSLFD TLDQLNKVK 
LNEVKPIER LDLGDFLPR DRAGFYRYE GSLTTPNCT 
EGVIWTVFT NGLPISSKQ LKIFSNLKT ESGGNIIKN 
YRTLQELND RKVQIKISP IESSTASHV AIPSVLLLY 
VGFFIVGDK L
    CDS sequence
    • >TC008569 RA
      atggttgtg acttcgata gcgcgtcgg cttttattt 
ttcatcttt tataatgca gttttggcg actgctttc 
cattgggat tacaaacat gaagacgaa tggcctgat 
caatgtcaa aagggaaaa cagcagtct cccattaat 
ttgtcacgt caaatggcc accgaaact ctctttcca 
tcatttatt tttgaatac tacgatgaa atatacaga 
gcggaaatc aagaacagt ggacataca gctcaaatt 
cagcttaaa gtagcagta aagccgaag gtgagcggg 
ggaggatta ctgtctact tatgtatta gacaacatg 
cattttcac tggaactca gagcacacc ataaatgaa 
gaaagattt cctctggaa ctacattta gtccattat 
gattctact aagaaaagt ttagctgaa gccttaaaa 
gtaaaggga ggagttgct gttttggct gtatttttc 
tatctttcc cctgatagt gacagcgaa ttcgactct 
ttatttgat accttggat cagctaaat aaagtcaag 
ctaaacgaa gttaaacct attgaaaga ttagattta 
ggggacttt cttccaaga gatagagct gggttttat 
cgatacgaa ggatcctta accacaccg aattgtaca 
gaaggagta atttggacc gtttttaca aatggtttg 
cctatttcc agtaaacag ctgaaaatc ttctccaat 
ttgaaaacg gaatcaggc ggcaacatt attaaaaat 
tatagaaca ttacaagag ctcaatgac agaaaagtt 
caaattaaa ataagtcct attgaatcc tcaactgca 
tctcatgtt gctattcct agtgtttta ttattatat 
gttggattt tttattgta ggtgataag ctctga
    mRNA sequence
    • >TC008569 RA
      gagacctct gtatttcgt aaacgaaga acaaaagat 
ctacttctt tttgcattt ttgccatct ccattgctg 
ttaccacaa gcacctttc ccgtggaaa ggattaggt 
tgtgactta aattatcac gaataaaca acacagagc 
catggcgtt atcaagaaa attaatttt gaaaatgtc 
tgaacaaat aatttgagg tcacagaat agccatagg 
tcacataag taatattta atatcgatg ctttgttta 
tataaatta tgttaattt ctccgtatt gaagtagag 
ataatttta ctatattta cattttgca agagatagt 
ttgaagcag cacttacgt gaattttgt ttaacgttt 
ttggtcaaa ataagttcc attttattt cagttctac 
gtgacagtg attttacat gccacgagg ccaaatatc 
attaacttt aataggtac gattgtaga atatgaagc 
aggcactca aaacgttat aacattgaa gccacaata 
cagtgacaa aattttaat gtgtaaaat ttttcgttt 
tgatattag tttgttgaa aatataatt gaagacgat 
aataataat taatgatta gaatgttga catgtaata 
aataattat tgcgaccta tttttcatg tttattagc 
aaaaattta cattttttg cgttatcta gtaaaacca 
aaagatatc gcatgtatg tgttcatta gttattgtt 
attttccat aataactag ccttgaaat tacattaat 
atgatacat tttcaaaaa atgtcaaca attggaaac 
ttccctttg atgggtact aatataatg ctaggtttc 
aaaagcaaa gacggttta agcgctttg ataatacag 
agattatat gcaataaag actcaagac attatgtaa 
ataaattaa taaggaaga caatttatt aggagagtt 
agtcttagt tatgtcgtt acaacaacg acaataatt 
tattcattg tcaaattta caaatgtat agttttcgg 
ttttgtgaa ttaatattt ttaaaattt attgcactt 
ggtgaccat tggctgcag ttaggcatt gaaatgtaa 
gctaaattt atcttgacg aatttattg ccgcatcgg 
ataagtgag ttaaattta aattgggga gaccaaatg 
gtagtactc ttcttaaag atttctttg ttagtaaca 
aactaaatt aagctaaaa ttaaggtat cattgttgt 
ctccaaaaa aaaacgtca aaatgacat taaaaattc 
tagtttact ttgtactgt aacttatat taataaatt 
gttatcttt attgctatt catttaaat aacaagtgt 
acaaaaagg atcaccgct agttcagtt tatttttca 
attgagaca ttggggggc agtttgcca acacagtga 
gatttcttt ggaggtagc aacgactgt gaaatttag 
ttttattag ttgaaacat ggttgtgac ttcgatagc 
gcgtcggct tttattttt catctttta taatgcagt 
tttggcgac tgctttcca ttgggatta caaacatga 
agacgaatg gcctgatca atgtcaaaa gggaaaaca 
gcagtctcc cattaattt gtcacgtca aatggccac 
cgaaactct ctttccatc atttatttt tgaatacta 
cgatgaaat atacagagc ggaaatcaa gaacagtgg 
acatacagc tcaaattca gcttaaagt agcagtaaa 
gccgaaggt gagcggggg aggattact gtctactta 
tgtattaga caacatgca ttttcactg gaactcaga 
gcacaccat aaatgaaga aagatttcc tctggaact 
acatttagt ccattatga ttctactaa gaaaagttt 
agctgaagc cttaaaagt aaagggagg agttgctgt 
tttggctgt atttttcta tctttcccc tgatagtga 
cagcgaatt cgactcttt atttgatac cttggatca 
gctaaataa agtcaagct aaacgaagt taaacctat 
tgaaagatt agatttagg ggactttct tccaagaga 
tagagctgg gttttatcg atacgaagg atccttaac 
cacaccgaa ttgtacaga aggagtaat ttggaccgt 
ttttacaaa tggtttgcc tatttccag taaacagct 
gaaaatctt ctccaattt gaaaacgga atcaggcgg 
caacattat taaaaatta tagaacatt acaagagct 
caatgacag aaaagttca aattaaaat aagtcctat 
tgaatcctc aactgcatc tcatgttgc tattcctag 
tgttttatt attatatgt tggattttt tattgtagg 
tgataagct ctgacaaga ttttttact aaccataag 
ctgaatatt atttattat tacaagtgt acctgtttg 
aatctaaat acattggtg tctaatgt

    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