Status
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Gene information
General information
TC006588 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_007423.3: 11717711..11724991
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
    		TC006588
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04176

    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: 10.0% (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: 1 (11 dpi)
    Days post injection

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

    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    remarks: animals lost,
    Pupal morphology
    remarks: animals lost,
    Adult morphology
    remarks: animals lost,
    Fertility
    remarks: animals lost,
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006588 RA
      MLALLPFIV GAAFCADSG PVGPITLYE 
LKNCEPDIN NIDLDVKLE TESDGSNSL 
TASFAIPED FGEEVQFRV VADKWENDD 
WKRNVWSMN PASFLKFIN ENVEKTWAN 
FREAIEPKI EDPMKVPKG EYKLDKHQQ 
DWHDVELSQ VIYGRFLAT VYLIVNGEE 
FACLQAELE TFEDE
    CDS sequence
    • >TC006588 RA
      atgctcgct cttctcccg ttcattgtt ggagccgcg 
ttttgcgct gactcgggc cctgtgggc ccgatcaca 
ctttacgag ttgaaaaat tgtgaaccc gacatcaat 
aacatcgat ctagacgtg aaactggag acggaatcg 
gacggaagt aacagcctg acggcctcc ttcgcgatt 
cccgaggac tttggcgaa gaggtccaa tttcgtgtg 
gtggccgac aagtgggag aatgacgac tggaagagg 
aacgtgtgg agtatgaat ccggcctcc tttctcaaa 
tttattaac gagaacgtt gagaagact tgggccaat 
ttccgagag gcgattgag ccgaaaatt gaggacccg 
atgaaagtg ccaaagggc gagtataaa ctggacaag 
caccaacaa gactggcat gacgtggag ttatctcaa 
gtgatttat ggcaggttt ttggccacg gtttacttg 
attgtcaat ggggaagag tttgcctgt cttcaggcc 
gagttggag accttcgag gacgaataa
    mRNA sequence
    • >TC006588 RA
      tgtcttaaa aacgtcgat taagttaaa aaattctgt 
cccgattaa caatgaggg aaaatattt ccactccgt 
gaaagaagg atcatttcc cgtgtcaaa gctttgtgt 
tcaaagccc cagcgcagc ctttgtgcc ccacttcga 
agccttcgc cacccccca gtgagtgaa tgcagacaa 
gacaatcga ataaaccct caaacaggt cgttcttat 
aaaatctcg tgccaaaat ctgtgtgtc ctagtgcga 
gactagtgt tccaattaa aaaactagt tccgaatta 
gttgactcg agccgtttt taccaaggg tgtgatttc 
ttgtgataa atttttcga atggttgga gttttcatg 
gaagattca gtgtgatta tttggttaa ttttttcaa 
gacgtgtaa attaatttt gaacaaatt tcgcgtgcg 
agcgagacg ggacgattg cttgaatat gcagtaggc 
gcgggatga aataattta cattcatgg caaaccctg 
atgtgatct acaccacaa cacgaattt ttccccgtc 
tcgtgatga taaaaaaaa cagaacgca aacttatga 
tagaccggg actgcgctc ctgcattat taaaatttt 
aaacagcgt tgctagcgc aataaatac tttcctaat 
taccgagga aattcctcg aacaaaacg actccactt 
aattaacat cgcccttaa aaatatttt ctttgcgaa 
atttatcgc ttgcttcaa tatggcggc cattactca 
tcccgtatc gcggcaggc tttgccccg ccataaata 
cttgataac agtgaaaag tagagagtt gtaacgttg 
ttactttgt cactggacc gtactttta agccggtga 
aaaattccg gttatcaag tatgggatt ttcctggcg 
ccactacca aaatagatc gcctagaaa aatatttct 
tttttcatt tctcaagtc gagtaaaac attcacaaa 
tttgtgacc taagtaatt gcaagtttt caatcgatg 
ggcgaatta cgcggcgct gacttggtt aagttctgt 
caaaagtgt tgtggtttg cttaacttt gtaatgaaa 
ttagtattt ttcgcatct ctccctcca aacttgaat 
caaacttct gattttaaa gtgaaatta aattccagt 
gggaaatta ttttaaaac cattaaaac ggaatattt 
taaccgtat ttgatgttt acgtacatt tagatttac 
gtctcggtt ggctctaaa ctccaaagt tttccgata 
attactcct ccactagca gagtcgtct agttttcga 
cagctgtcg ctttttcgc tctagtgga gtaaacatt 
tttgccttt gcattgcga taaatatcg cgtattttc 
gtcgtcatc gctccaatt acgcccaaa actaagcgc 
gagtgattg atagagcag tctgttccg aacattgcg 
aattgttaa ctcaatcgt ctgcgaaac gtcagacaa 
gcaaaaatt tattctgtt tacacttgt tttgttata 
attacgaag agaattttt cacgctcga acggccagc 
gctttattc aatttggac gaacgtaaa attatcgag 
aattttgtg ttatgccct cgtaaaaaa taagatcga 
ggcgatttg gcaaaaccg ttccaagga gcaaatatt 
aacaaatgt aattaagtt gctcagcgg ccagtcctc 
cacaataag ataacctat taacaataa agcaaatat 
taacatcgt atacatgac ccaactatg taatttcgc 
attaacata tgaataatc tgtatgtgt tgtaattag 
agtgctatc tgactcggg gcgcattta acctaattg 
catgctaaa tttatagac acacattgg aattttcca 
tgaaaactt ggggaaaac ttcgagcca tatgtagtt 
atgattgtg aatagacga tttaaaatt gttaacgtt 
gtaaatacg atccgggga agaaccgac ggtttcacg 
ccagagggc gctaaatcg gatcatccc cgcattagc 
gtatatagt tattataac gagatttcg gtaatggcg 
gacttaagt cgggattac agagcactg taaccgcaa 
catggcgtc gcacacaac tgccatttt tattcagac 
gcgctgtac ataaataac tatgataat caagtagga 
tgaacaaat aaataagag ttgtatgta gatagtact 
gcactttat attgtaagc aatcaccaa ataaataaa 
ttattacta aaccttgtc gttgtacct agcccaagg 
ccgaaacac gtgttaaca tattttttc caatttaac 
tgtaaatat aaaaaggaa atacggtaa aaattgtca 
caaaatgct cgctcttct cccgttcat tgttggagc 
cgcgttttg cgctgactc gggccctgt gggcccgat 
cacacttta cgagttgaa aaattgtga acccgacat 
caataacat cgatctaga cgtgaaact ggagacgga 
atcggacgg aagtaacag cctgacggc ctccttcgc 
gattcccga ggactttgg cgaagaggt ccaatttcg 
tgtggtggc cgacaagtg ggagaatga cgactggaa 
gaggaacgt gtggagtat gaatccggc ctcctttct 
caaatttat taacgagaa cgttgagaa gacttgggc 
caatttccg agaggcgat tgagccgaa aattgagga 
cccgatgaa agtgccaaa gggcgagta taaactgga 
caagcacca acaagactg gcatgacgt ggagttatc 
tcaagtgat ttatggcag gtttttggc cacggttta 
cttgattgt caatgggga agagtttgc ctgtcttca 
ggccgagtt ggagacctt cgaggacga ataattaac 
caatttact gtaatttac tgattcaca taataaaat 
tattatttt aaa

    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