Status
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Gene information
General information
TC005852 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: 6439502..6457074
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
    		TC005852
    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_00944

    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: 20.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 60.0% (includes death as larva, prepupa, pupa, adult)

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

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 4 (22 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (41 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005852 RA
      MWFDLGRSE GFPTQYPPN QTPVTVDVL EAGFIAAFI 
ILLLSLLVL LPTSSLKKT LCLFVEITT LLTIGLLLL 
LGNFGQEWE VGHILTRTP YKAGSSAEI NASIGLKIG 
LRSVNVTLK SDQNPPNLA REIINYNER FSWTWDQDR 
LGFGPFAGH LQQEFRAAQ YRGLPTPIL WVVEYFVID 
GEGFRFGRF YRTAGWYSH VALWCAFAC WLVALLLFR 
SVILYGGYC LAACGALQL TANLIWLVV RNPIPLVVP 
FEDGTITTR FGLSYWITF ASGILCLVI AIIITLLDT 
KFHTLLYTF FGVDPLNSY DEVAYLTKN ELLLRTKNI 
SNDVPLIPM SNSPKEEED DSAEYVPVY IKRKTRAFG 
PPVVRSNKP KHLLEM
    CDS sequence
    • >TC005852 RA
      atgtggttc gatttggga cgaagtgag ggatttcca 
acccaatat ccccctaat caaaccccc gttactgtc 
gacgtgctg gaagccggc tttattgcc gctttcatc 
attttgttg ctttctctt ctcgttctt ttaccaaca 
tcgagttta aaaaagacc ttgtgcctg ttcgtcgaa 
ataacaacc ctcctaaca attggcctc ctcctcctc 
ctcggaaac ttcggccaa gaatgggaa gttggccac 
atcctcact agaacccct tacaaagcc ggctcttcg 
gccgaaatc aacgcctca attggccta aaaatcggc 
cttcggagc gtcaacgta acactcaaa tccgaccaa 
aaccctcca aacctcgcc agagaaata atcaattac 
aatgagaga ttttcctgg acttgggac caagaccgg 
cttggtttt ggccctttt gcaggccac ctccagcag 
gagtttcgc gcggcgcag tacaggggg ctcccaacg 
cccattttg tgggttgtg gagtatttt gtgatagat 
ggggaaggg ttccgtttt gggaggttt tacaggaca 
gcggggtgg tactcccat gtggcgcta tggtgtgcc 
tttgcttgt tggttggtg gctttgttg ttgttccgg 
tcggtgatc ttgtatggg ggctattgt ttggcggcg 
tgtggggct ctacaactc acggcgaac ttgatctgg 
ttggttgtg cgaaacccg attccgttg gtggttccg 
ttcgaggat gggacgatt acgacgagg tttgggctc 
agttattgg atcactttt gcgtcaggg attttatgt 
ttggtgatt gccataatt atcacttta ctcgacaca 
aaattccac acacttctt tacactttc tttggcgtt 
gacccactc aacagttac gatgaagtt gcttacttg 
accaaaaac gaactacta ctaagaaca aaaaatata 
tcaaacgat gtgcccctc atacccatg agtaattcc 
cctaaagaa gaagaagac gacagcgcc gaatacgtc 
cccgtgtat atcaagcgc aaaactcgg gcctttggc 
ccccctgtt gtccgaagc aacaaacct aaacactta 
ctggaaatg taa
    mRNA sequence
    • >TC005852 RA
      tctattttg cttggtttc agatgagaa atactcgcc 
ggagcagaa agtgtacgt ttactgccc gtactgtta 
tcgcaagtt cgtcaatcg ctataatct gaaggtgca 
catccgaga caagcacga ggacagccc cagcgactt 
agactgtag ggtttgtgg taaggtaat gcgaaatag 
gagctgtct acgcgtaca catgtacca ccatcgcaa 
gcagcaatt ggaggccac gtgcgccgt tccaatcag 
ttaacaatt ttttatttt tgctcattg tgcacagct 
ctaggttag ggatttttt tgttgtgtt atatttatt 
tcataggct gttacgttc caaattcgg gcgggcgca 
ggttggacg cgataacta cctcgactg aaactaaat 
tcgagtatt aaccagtct tttgtattg gacaacctg 
gctaaagta ctacagggt gagtctgtt tgaaatata 
ttttaactt tttcccaaa attgatttt tttcactat 
tctttataa taaatattg actgattgt tttttttct 
gaaattgtt cgtaaagta gtactcttc agtactcat 
atgtcattg tacaatttt aagatagtc tgtaaaatt 
taatgtttt tatgaaatg ttgtctctt ttaaataaa 
aaaatacgc catttttgt tggttcaca aaacgtgtc 
ttacaaagt aaataatta atagttgtt attattaca 
aaaatatgt acaaaacgt cgatcatat tttgttttt 
aaataatgt aagaaaaac aatcagcga tttaatgtc 
aataatgta attgaaact tatctatta ctaagaata 
gttaaaaaa atcacctgc acaaagaaa aaagtaagt 
ctttaatgt cagacgttg gttttcatt ttcgatata 
aaattaaat atactttga acagactga ccttgtaaa 
taaggtgaa caatattat gaaactgag cgctttttt 
cttaagcta tttacgaac aaattaaaa tacttttta 
gcttttgag tttgttaaa acaacttgt gtaaattgt 
gtaactttt ttttaagtt gatattgaa acattcatc 
ttttcctta gttttttaa ataattttg tgaccaatt 
gggcttgat taaatttca gctacgcta aagcgtttt 
agaaatgtg ataactgat aagtatgaa attttttta 
gccaatatt taattccaa attctggtt atcgaattt 
ttttttcta ttttattgt tttgttcag gattttttg 
gaaaccaga annnnnnnn nnnnnnnnn nnnnnnnnn 
nnnnnnnnn nnnnnnnnn nnnnnnacc agaaacaat 
ttatttttt cggaaagtg aatagttta cgtaaaaaa 
acgtttggt tctatactt ttgttcact ttaacattc 
catttcgcc tgcatgtat aaaccaaat atgagtttt 
tgtttattt atgagttgt ggtaccatt taatgctgc 
tctttgttt ttttttctt ctttaatta ttaacggtt 
ttgttgtta tgtttttgg atataagca tttacttgt 
gataaatta attttaata gcacaatca cattgggtt 
ctgaacatt tgtatgtgt gtgtatgtc tgacattcc 
atgtatgtt gttaagaaa cgggaccat tttctaata 
ttctaacca atattaata aacaaaaaa gttgaccta 
gttatttac ccgttcttt attccatat ttcccgtga 
tatccagta ctttagcat ttaatgaaa cttatttta 
ttgcaataa aacaaacat ttgaatgtc aactgttcg 
tatcttatc tcgccaaaa aggaagttt gggtttttc 
gtcaaaggg agtgtctga atcaacaac acaccagta 
tgtattaaa atgtggttc gatttggga cgaagtgag 
ggatttcca acccaatat ccccctaat caaaccccc 
gttactgtc gacgtgctg gaagccggc tttattgcc 
gctttcatc attttgttg ctttctctt ctcgttctt 
ttaccaaca tcgagttta aaaaagacc ttgtgcctg 
ttcgtcgaa ataacaacc ctcctaaca attggcctc 
ctcctcctc ctcggaaac ttcggccaa gaatgggaa 
gttggccac atcctcact agaacccct tacaaagcc 
ggctcttcg gccgaaatc aacgcctca attggccta 
aaaatcggc cttcggagc gtcaacgta acactcaaa 
tccgaccaa aaccctcca aacctcgcc agagaaata 
atcaattac aatgagaga ttttcctgg acttgggac 
caagaccgg cttggtttt ggccctttt gcaggccac 
ctccagcag gagtttcgc gcggcgcag tacaggggg 
ctcccaacg cccattttg tgggttgtg gagtatttt 
gtgatagat ggggaaggg ttccgtttt gggaggttt 
tacaggaca gcggggtgg tactcccat gtggcgcta 
tggtgtgcc tttgcttgt tggttggtg gctttgttg 
ttgttccgg tcggtgatc ttgtatggg ggctattgt 
ttggcggcg tgtggggct ctacaactc acggcgaac 
ttgatctgg ttggttgtg cgaaacccg attccgttg 
gtggttccg ttcgaggat gggacgatt acgacgagg 
tttgggctc agttattgg atcactttt gcgtcaggg 
attttatgt ttggtgatt gccataatt atcacttta 
ctcgacaca aaattccac acacttctt tacactttc 
tttggcgtt gacccactc aacagttac gatgaagtt 
gcttacttg accaaaaac gaactacta ctaagaaca 
aaaaatata tcaaacgat gtgcccctc atacccatg 
agtaattcc cctaaagaa gaagaagac gacagcgcc 
gaatacgtc cccgtgtat atcaagcgc aaaactcgg 
gcctttggc ccccctgtt gtccgaagc aacaaacct 
aaacactta ctggaaatg taaacaatg ttcaaataa 
taatacaat aaggtt

    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