Status
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Gene information
General information
TC011542 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_007418.3: 3725032..3727289
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
    		TC011542
    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
    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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05053

    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)

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

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: 2 - Number of animals showing the phenotype: 1
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: - Number of animals showing the phenotype: 1
    ovary without detectable defects - Number of animals showing the phenotype: 2
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 75.0% (includes death as larva, prepupa, pupa, adult)

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

    adult lethality - Number of animals showing the phenotype: 4 (19 dpi)
    Days post injection

    Pupal morphology
    wings not closed - Number of animals showing the phenotype: 10

    wings size decreased - Number of animals showing the phenotype: 10
    oblique dorsal thoracic muscles shortened - Number of animals showing the phenotype: 10

    longitudinal dorsal thoracic muscles fluorescence decreased - Number of animals showing the phenotype: 10
    Adult morphology
    elytra not closed - Number of animals showing the phenotype: 6


    elytra surface irregular - Number of animals showing the phenotype: 6

    elytra size shortened - Number of animals showing the phenotype: 6

    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011542 RA
      MEKVYPSID DLSNVNKKS CPECSALFN SDSNLNLHL 
AKTHKKPKL LEPTNPNKI FYCPITTCS YHNTSHFKQ 
FKPLKQHFL KVHSDKNFL CTLCQKGFA TESSRNKHT 
EYCDVAFKC CDCDVSYSC YETLKTHSR RKKHNILEK 
VAYKTSLPP SVKNPKSDD SLATNRLRL ILPKPSNST 
GMIDTSEQS VQTDKSNNS QETQTFLAA RLPQFTVET 
QTIGDYFTK KPVKSTELK NIKTQTIAP VAKTSSCNT 
LFNLDDFVL SVMEDMQRS SSSTQTNIC EESENIYSA 
STSTHDSIH TDTSDLLND TFDSNFFNM ETQTDFDDL 
FKYCDDYSN MYTQTCHEL LLGKIGLND TQTQTVFDD 
VLKSVESQT VMSQFKVLP ASCKDNATH METQTDTHF 
MQMLEEINA
    CDS sequence
    • >TC011542 RA
      atggaaaaa gtgtacccc agcattgac gacttgagc 
aacgtgaat aagaaaagt tgtcccgaa tgctccgca 
ttattcaac tccgactcc aacctcaac ctccacttg 
gccaagacc cacaaaaag cccaagctt ttggaaccc 
actaacccc aacaaaatt ttctactgc cctattacc 
acgtgttct taccacaac acgtcacat ttcaagcag 
tttaagccc ctgaaacaa catttcttg aaagtgcac 
tctgacaag aattttctc tgcaccctg tgccagaaa 
ggctttgcc accgaatcg tcccgcaac aaacatacg 
gaatattgc gacgttgcg ttcaaatgt tgcgactgc 
gacgtgtcg tactcgtgc tacgagacg ttgaaaaca 
cacagtcgg cgtaaaaaa cacaacatt cttgaaaaa 
gtcgcctac aaaacgtca ctgcctcca agtgtgaaa 
aacccaaag agtgacgac tctttggcc acgaacaga 
ctgagactc attcttccg aagccttcc aacagcact 
ggaatgatt gacacgtcc gagcaaagc gtccagaca 
gataagtcc aacaacagt caagaaacg cagacgttt 
ctggccgcc aggttgccc cagttcacc gttgagacg 
caaaccatc ggcgattat ttcaccaaa aaaccggtc 
aagtccacg gaattgaaa aatatcaag actcaaacc 
atcgccccc gtggctaaa acctcctcg tgcaacact 
ttgttcaat ttggacgat ttcgtgcta agtgtgatg 
gaagatatg cagagaagt tcgtccagt acccagact 
aacatttgc gaggagtcg gagaatatt tattcggcc 
tcaactagc acgcatgac tccatacat acggacact 
tctgatttg ttgaatgac acgtttgac tcgaatttc 
ttcaatatg gagacgcag accgacttt gacgacttg 
ttcaagtac tgtgatgac tacagcaat atgtacaca 
cagacttgc cacgaactg ttgttgggt aaaattgga 
ctaaacgac actcagacc caaactgtc tttgacgat 
gttctcaaa tcggtggaa agtcagacg gtgatgtcg 
caatttaag gtcctacca gcgagttgt aaggacaat 
gccacccat atggaaaca cagactgat acgcacttc 
atgcaaatg ctggaggag ataaatgcc tga
    mRNA sequence
    • >TC011542 RA
      aatgttatt tatttaacc caaaaataa ataatttgg 
gacttaccg gtgtcacat tcggtgttg catcttgca 
gactttttg tgagcaagg gaaagtacc cttttacaa 
aaaagtcgc aaaaagttc gtatgactt ctccaattt 
tctgaaaac atggacatt tttgcacag tgcgtgtta 
tctctctac caagtgagt gacattgct tacgtgtcc 
taatttaca aaaatggta attaccttg catttgaat 
atgggttgt aaaaactgc cacaaatgc atatcacat 
ctcacacca aagattttg cacaattaa cttttaatt 
ttgacgaaa cgaagttcg taaagtgga aaatgacac 
gataacgac taatcacaa aaactgcca taaaaaatc 
gtggggtag gcggagaat tcgattagc gtttgtaaa 
caattgacg ccgaaaaat tttcgttgt cttttacaa 
aaaattact aatttcatt cacaaaagg cgcaaaaaa 
ttcatcaat catggaaaa agtgtaccc cagcattga 
cgacttgag caacgtgaa taagaaaag ttgtcccga 
atgctccgc attattcaa ctccgactc caacctcaa 
cctccactt ggccaagac ccacaaaaa gcccaagct 
tttggaacc cactaaccc caacaaaat tttctactg 
ccctattac cacgtgttc ttaccacaa cacgtcaca 
tttcaagca gtttaagcc cctgaaaca acatttctt 
gaaagtgca ctctgacaa gaattttct ctgcaccct 
gtgccagaa aggctttgc caccgaatc gtcccgcaa 
caaacatac ggaatattg cgacgttgc gttcaaatg 
ttgcgactg cgacgtgtc gtactcgtg ctacgagac 
gttgaaaac acacagtcg gcgtaaaaa acacaacat 
tcttgaaaa agtcgccta caaaacgtc actgcctcc 
aagtgtgaa aaacccaaa gagtgacga ctctttggc 
cacgaacag actgagact cattcttcc gaagccttc 
caacagcac tggaatgat tgacacgtc cgagcaaag 
cgtccagac agataagtc caacaacag tcaagaaac 
gcagacgtt tctggccgc caggttgcc ccagttcac 
cgttgagac gcaaaccat cggcgatta tttcaccaa 
aaaaccggt caagtccac ggaattgaa aaatatcaa 
gactcaaac catcgcccc cgtggctaa aacctcctc 
gtgcaacac tttgttcaa tttggacga tttcgtgct 
aagtgtgat ggaagatat gcagagaag ttcgtccag 
tacccagac taacatttg cgaggagtc ggagaatat 
ttattcggc ctcaactag cacgcatga ctccataca 
tacggacac ttctgattt gttgaatga cacgtttga 
ctcgaattt cttcaatat ggagacgca gaccgactt 
tgacgactt gttcaagta ctgtgatga ctacagcaa 
tatgtacac acagacttg ccacgaact gttgttggg 
taaaattgg actaaacga cactcagac ccaaactgt 
ctttgacga tgttctcaa atcggtgga aagtcagac 
ggtgatgtc gcaatttaa ggtcctacc agcgagttg 
taaggacaa tgccaccca tatggaaac acagactga 
tacgcactt catgcaaat gctggagga gataaatgc 
ctgactata atggaaatt tctttggtt ttgttgaag 
gagcaaatt ctaatctcg ctttggaaa ctgttcaat 
tttacaaat tttccattc ttaccttgt aaccatttt 
taatgggaa gtaacaata aattttcta ctacgcaat 
gaaagggtt tttgttcat ttaaggcct taattttgg 
acaaccagt cgtgaattt aatgggtgc aaagattaa 
ttagaaatt tgtgtatga tactgacag gagagaacg 
aagaataaa agaagtaac taatgacag gggaggtgt 
ctaaaaaat taaaagtgt gaaagctag gtgattcag 
agatgatgg aactgagaa gaagagggt tcacggaat 
aagagaggg tacgtaaaa atggaagca gttaaaaac 
tacagaaaa gtaaacatt ttaaaaacg aaaacaaaa 
tcacatgct tatgtgaat ataaaattt aaaataaat 
ttttaagca gtaa

    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