Status
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Gene information
General information
TC034087 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: 9729892..9732708
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
    		TC034087
    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 *
    {{ blurReferenceResult }}
    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_08919

    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: 40.0% (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: 3 (9 dpi)
    Days post injection

    Adult morphology
    abdominal odoriferous glands partially content darker - Number of animals showing the phenotype: 4 (13 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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
    • >TC034087 RA
      MSQDKVSLL RDPTAGVST SSDSRNYDS VDPPPHTEN 
RAQISFVPR RLPQYVAAL TATLSALAA GAVLGWTSP 
ILSDLQHGK FHNISVTSD QMGWIGSFV TLGGMTMCI 
PTGFLCDLL GRKKTLLLL IAPFAVGWS LIIFAKSII 
MLYLGRLIT GMAAGASCV AAPLYTSEI AQKEIRGTL 
GSYFQLMVT VGIFLAYLS GKYLTSMPY TIFCACLPV 
VFVVLFAFQ PETPAFCLR RGRYDDALK ALVKLRGPC 
EGNESELAE IEGSLKESL ESSVSFSQT FRKKANVKA 
LVIAFALMF FQQFSGINA VILYTSDIF ASAGSNLDA 
NTAAIIVGA FQVVATFVS SLVIDKLGR KILLFTSAV 
VMALSSLVL AIYFTLKCR TSIDGDILH ELGFIPIVS 
LCLFVVVFS IGLGPIPWM ISSEIFTPE IKSIASSSA 
GTFNWFLAF LVTKFYLQV NERVGQDST FYAFAVLSL 
LGGAFVYFV IPETKGKTV EQVQAELER
    CDS sequence
    • >TC034087 RA
      atgagccaa gacaaagtg tctctatta cgcgaccca 
actgccggt gtttccaca tcatcagac agcagaaac 
tacgactct gtggaccct ccaccccac accgaaaac 
cgtgcccaa atcagcttt gtccctcgc cgactcccc 
caatatgtg gccgccttg acagcaact ttatcggcc 
ctcgctgct ggtgccgtc ctgggctgg acttccccc 
attttaagc gacctccag cacggtaaa ttccacaat 
atttcagtc actagcgac caaatgggc tggattggc 
tcgttcgtc actctaggt ggcatgaca atgtgcatt 
cctactggt tttttgtgc gacttgcta ggccgtaaa 
aaaacactt cttctcctt attgcaccg ttcgccgtt 
ggttggtcg ctcattatt ttcgccaaa tcgataata 
atgctgtat ttggggcgc ctgatcacc gggatggcc 
gctggggcg tcgtgcgtg gcagccccc ttgtacacg 
agcgaaatc gcgcagaag gaaatccgc ggcacgctt 
ggcagctac ttccagttg atggtaact gtcggtatt 
ttcctagcc tatttgtcc gggaaatac ctcacttca 
atgccctat acgattttt tgtgcttgt ctcccggtt 
gttttcgtc gttttgttt gcatttcaa ccggaaact 
ccggcgttt tgtttacgt agggggcgc tatgacgac 
gctctgaag gcgttggtt aagttaagg gggccctgt 
gagggcaac gagtccgaa ttggccgaa attgaaggc 
tcgttgaag gaaagtctc gaaagttcg gtttctttt 
tcgcaaacg tttcgcaaa aaagccaac gttaaagcg 
ctcgtgatt gcgtttgcg ttgatgttt ttccaacag 
tttagtggc attaatgct gttattttg tacacgagt 
gatattttt gcatcagct ggttcaaat cttgatgct 
aatactgcg gcgattatc gtgggggcc tttcaggtt 
gttgctacg ttcgtttcg tctttggtg attgataaa 
ttggggcgg aaaattctc ctatttacc tcggccgtg 
gttatggca ctttcaagt ctcgtcttg gcgatttat 
ttcactttg aaatgtcga acgtccatt gatggtgat 
attttgcac gagcttggt ttcattccg atcgtgtcg 
ctgtgtctt tttgtggtg gttttctcc ataggttta 
ggtcccatt ccttggatg atttcttcg gagattttt 
acaccagaa attaaaagt atagccagt tcaagtgct 
ggtactttc aattggttt ttagcattt ctagtgact 
aagttttat cttcaagta aatgaacgt gtaggtcag 
gactcgact ttttatgca tttgctgtt ttgtctctt 
ttgggtggg gcgtttgtt tattttgtg atacctgag 
actaaagga aaaactgtc gaacaagtc caggcagaa 
cttgaacgt tga
    mRNA sequence
    • >TC034087 RA
      tttcaactt tcagcggtt gtttttcac ccaaaatcg 
aaatttttt aaagtaaaa cgtaagaca agggtccca 
caatcattc ccaatgagc caagacaaa gtgtctcta 
ttacgcgac ccaactgcc ggtgtttcc acatcatca 
gacagcaga aactacgac tctgtggac cctccaccc 
cacaccgaa aaccgtgcc caaatcagc tttgtccct 
cgccgactc ccccaatat gtggccgcc ttgacagca 
actttatcg gccctcgct gctggtgcc gtcctgggc 
tggacttcc cccatttta agcgacctc cagcacggt 
aaattccac aatatttca gtcactagc gaccaaatg 
ggctggatt ggctcgttc gtcactcta ggtggcatg 
acaatgtgc attcctact ggttttttg tgcgacttg 
ctaggccgt aaaaaaaca cttcttctc cttattgca 
ccgttcgcc gttggttgg tcgctcatt attttcgcc 
aaatcgata ataatgctg tatttgggg cgcctgatc 
accgggatg gccgctggg gcgtcgtgc gtggcagcc 
cccttgtac acgagcgaa atcgcgcag aaggaaatc 
cgcggcacg cttggcagc tacttccag ttgatggta 
actgtcggt attttccta gcctatttg tccgggaaa 
tacctcact tcaatgccc tatacgatt ttttgtgct 
tgtctcccg gttgttttc gtcgttttg tttgcattt 
caaccggaa actccggcg ttttgttta cgtaggggg 
cgctatgac gacgctctg aaggcgttg gttaagtta 
agggggccc tgtgagggc aacgagtcc gaattggcc 
gaaattgaa ggctcgttg aaggaaagt ctcgaaagt 
tcggtttct ttttcgcaa acgtttcgc aaaaaagcc 
aacgttaaa gcgctcgtg attgcgttt gcgttgatg 
tttttccaa cagtttagt ggcattaat gctgttatt 
ttgtacacg agtgatatt tttgcatca gctggttca 
aatcttgat gctaatact gcggcgatt atcgtgggg 
gcctttcag gttgttgct acgttcgtt tcgtctttg 
gtgattgat aaattgggg cggaaaatt ctcctattt 
acctcggcc gtggttatg gcactttca agtctcgtc 
ttggcgatt tatttcact ttgaaatgt cgaacgtcc 
attgatggt gatattttg cacgagctt ggtttcatt 
ccgatcgtg tcgctgtgt ctttttgtg gtggttttc 
tccataggt ttaggtccc attccttgg atgatttct 
tcggagatt tttacacca gaaattaaa agtatagcc 
agttcaagt gctggtact ttcaattgg tttttagca 
tttctagtg actaagttt tatcttcaa gtaaatgaa 
cgtgtaggt caggactcg actttttat gcatttgct 
gttttgtct cttttgggt ggggcgttt gtttatttt 
gtgatacct gagactaaa ggaaaaact gtcgaacaa 
gtccaggca gaacttgaa cgttgaatt attgttatt 
acacaatga atgtttaaa tactcaatg ttatgattg 
tctcaaata tctaaatgg tgctagtta taatttcat 
taatgacac tgttcagca aattgggac gaaattatg 
tttctttaa tgaagaaat tttgagaaa atcgctggt 
ttttggcgt tttgttggc actttcctg cttaggaaa 
actgaaaaa atatttttt aataaatga aaaattact 
tttttaact cttaaactt atgacattg atgtaaatg 
aaaacaaat ataaaaaat aagacattt cggctgccc 
caagctaag gcacagtat ctgcttttt acttaattt 
ttcactgga cccaaaaat aacttttaa aaatactac 
tcaccacta ctacttaaa tattaaatg ctattaaaa 
agtaaatac aatttcaag tagttttca gtacaaaag 
caattagtt aataataag ataacgaat attaacatt 
tacgaacaa atttatgca ataacccga gacagaaat 
ttggccaac ttaaagttc gactaaaag taatatatt 
atctgataa tgaaattat aaaatatag atttttaca 
cctatgtga gttattttt acttggagt acaattgac 
tgtctctat ggtaggtat tttgtagat actttttgg 
ggaaaggaa tattctatt ggagtaact gtttatggg 
gaaaaaata tattaattt aaataaaaa tagctaatg 
aatatttaa ttgaatcta agcggaaaa ataaaacaa 
aatatgtaa aaaatatgt tggatactg tgtttttcc 
ttaggacag ccaagttaa tttgtaaaa ttcaattaa 
aaattctct aaatctctc taaagtctg ggtggaaat 
gtacaactt tcactttca aactttcag taattttat 
ttcctaatg cagttaggg gaagttaca cgtttacac 
actttatat atatttttt tatttatat atttttttc 
atcatttct gcaaaaact agtgtttta aacgtgata 
tttttctga taaaatata tccctattt tttttaaca 
aaattcttc aaattcttt tacgagtat agtgtacca 
gttagaaaa tttttcaaa atttcaatt ggttttagt 
cagaatata atataataa tatta

    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