Status
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Gene information
General information
TC011231 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_007425.3: 759444..770742
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
    		TC011231
    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_04997

    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)

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

    Fertility
    vitellarium not present - Number of animals showing the phenotype: 3

    tropharium size decreased - Number of animals showing the phenotype: 3

    ovary without detectable defects - Number of animals showing the phenotype: 1
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
     cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    maxillary palp present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

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

    Fertility
    egg production: number <50% of expected -
    previtellogenic egg chamber mostlynot present - Number of animals showing the phenotype: 4

    vitellogenic egg chamber not present - Number of animals showing the phenotype: 4
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011231 RA
      MFEKIFQSL DVTSLLIIA IFFLFLEYR PPWWYRNND 
CKKGVKLIP GPLALPGLG TTWIFFFGG FSFNRLHLY 
YENMYKRYG PVMKEEYWC NIPVINLFE KREIVKVLK 
AGGKYPLRP PVEAVAHYR RSRPDRYAS IGLVNEQGE 
AWYDLRSTL TPALTSPKT ITSFLPEAQ QIADDWCNL 
LKLSRDKNG RVSNLNYIA DRLGLELTC ALVLGRRMG 
FLLPGAETE TGEKLAEAV RQHFLGTRD TYFGFPFWK 
LFPTPAYKT LIKSEASIY ELALELINS ANESTKESA 
VFQSVIQAE IDEREKIAA IIDFISAGI HTMKNSLLF 
LLHLIGQDL QIQKKIIED STKSYSKAC VTETFRLLP 
TANALGRIL EEEMELGGY RLSAGTVVV CHFGIACRD 
ERNFPDASK FKPERWLDD DKVQTATNS LFLLTPFGA 
GRRICPGKR FIEHILPLL LESTVNSFE IQAEEELEL 
QFEFLVTPK GQMPMVFKD RV
    CDS sequence
    • >TC011231 RA
      atgtttgag aagattttt cagtcgttg gacgtcaca 
agtttgctc atcatcgcg atcttcttc ctgttcttg 
gagtacagg cctccgtgg tggtaccgc aataatgat 
tgcaagaaa ggtgttaaa ctcataccg ggacccttg 
gctttacct gggcttggt actacctgg atatttttt 
ttcggaggg ttttccttc aaccgactg cacctgtat 
tacgaaaac atgtacaaa aggtatgga cctgtcatg 
aaagaagaa tattggtgt aatatacct gttattaac 
ttatttgag aaaagagaa attgtgaag gttcttaaa 
gcgggtggc aagtatcct ctaagacca cctgttgaa 
gcagtcgcc cactatcga agaagtcgc cctgataga 
tacgctagc attgggttg gtcaacgaa caaggtgag 
gcatggtac gacctccgc agcaccctc acccccgct 
ctcaccagc cccaaaaca atcaccagc ttcctcccc 
gaagctcag caaatcgcc gacgactgg tgcaacctc 
ctcaaacta agccgtgac aaaaacggc agagtatcc 
aacctaaac tacatcgca gaccgactc ggcctggag 
ctaacctgc gccctagtc ctcggacgc agaatgggc 
ttcctcctg ccaggcgcc gaaaccgaa accggggaa 
aaactcgcc gaagccgtc cgacaacac ttcctcggc 
acccgagac acctacttc ggcttcccc ttctggaaa 
ctcttccca acaccggcc tacaaaaca ctcatcaaa 
agcgaggct tccatctac gaactcgcc ctagaactg 
atcaattct gccaacgaa tcgaccaaa gaaagtgcc 
gttttccag tcagttatc caagcggaa attgacgaa 
agggagaaa atcgccgcc attattgac ttcatatct 
gcggggatt cacaccatg aagaacagt cttttgttt 
ttgctgcac ctgattgga caagacctc caaatacag 
aagaaaatc atcgaggat tcgaccaaa tcgtactcg 
aaagcgtgc gttactgag acttttcgt ctgttacca 
actgccaac gctttaggg aggatcctg gaggaggag 
atggaactt ggaggttac cgtttaagt gcaggaaca 
gtggtcgtg tgtcacttt gggattgcc tgccgagac 
gaacgcaat tttccggac gcttcaaag ttcaaaccg 
gagcgatgg ctggatgat gataaggtg caaactgcg 
actaattcc ctgtttctt ttgacccct ttcggggcc 
ggccggagg atttgtccc ggaaagaga tttatcgaa 
catatttta ccgctgttg cttgagtcc actgtcaat 
tcgtttgag attcaagcg gaagaggag ctcgagttg 
cagtttgag tttttggtg acgccgaaa ggacaaatg 
ccgatggtt tttaaagat agagtctag
    mRNA sequence
    • >TC011231 RA
      acacattgt tgaaaccga atctgtgcg atgttgacg 
tgagaaata attaatctt caatattct gacctcgtc 
agaaccttg acccgctaa agcactctc ttcttacca 
tccatttat ctgataaga taagtcgaa aaaagccgg 
caaaatccg cgcgctatt caatatctt acacaaatg 
tcagaaaga tgatgaaga gaacttccg ttaagagtc 
tggaatgtt ggagatgcg gctgttgaa ccattcttc 
aacagttta tacaaaaga cccaagcaa gacgctacg 
agaccgttc ttttaacct aaaatcgcc ggtaatctc 
agttaatgt cttaaaata cacaaacga taatcgtgt 
gggttatcg agtgctcgt ctcgacggt tttgaaacc 
ccaagatgt ttgagaaga tttttcagt cgttggacg 
tcacaagtt tgctcatca tcgcgatct tcttcctgt 
tcttggagt acaggcctc cgtggtggt accgcaata 
atgattgca agaaaggtg ttaaactca taccgggac 
ccttggctt tacctgggc ttggtacta cctggatat 
tttttttcg gagggtttt ccttcaacc gactgcacc 
tgtattacg aaaacatgt acaaaaggt atggacctg 
tcatgaaag aagaatatt ggtgtaata tacctgtta 
ttaacttat ttgagaaaa gagaaattg tgaaggttc 
ttaaagcgg gtggcaagt atcctctaa gaccacctg 
ttgaagcag tcgcccact atcgaagaa gtcgccctg 
atagatacg ctagcattg ggttggtca acgaacaag 
gtgaggcat ggtacgacc tccgcagca ccctcaccc 
ccgctctca ccagcccca aaacaatca ccagcttcc 
tccccgaag ctcagcaaa tcgccgacg actggtgca 
acctcctca aactaagcc gtgacaaaa acggcagag 
tatccaacc taaactaca tcgcagacc gactcggcc 
tggagctaa cctgcgccc tagtcctcg gacgcagaa 
tgggcttcc tcctgccag gcgccgaaa ccgaaaccg 
gggaaaaac tcgccgaag ccgtccgac aacacttcc 
tcggcaccc gagacacct acttcggct tccccttct 
ggaaactct tcccaacac cggcctaca aaacactca 
tcaaaagcg aggcttcca tctacgaac tcgccctag 
aactgatca attctgcca acgaatcga ccaaagaaa 
gtgccgttt tccagtcag ttatccaag cggaaattg 
acgaaaggg agaaaatcg ccgccatta ttgacttca 
tatctgcgg ggattcaca ccatgaaga acagtcttt 
tgtttttgc tgcacctga ttggacaag acctccaaa 
tacagaaga aaatcatcg aggattcga ccaaatcgt 
actcgaaag cgtgcgtta ctgagactt ttcgtctgt 
taccaactg ccaacgctt tagggagga tcctggagg 
aggagatgg aacttggag gttaccgtt taagtgcag 
gaacagtgg tcgtgtgtc actttggga ttgcctgcc 
gagacgaac gcaattttc cggacgctt caaagttca 
aaccggagc gatggctgg atgatgata aggtgcaaa 
ctgcgacta attccctgt ttcttttga cccctttcg 
gggccggcc ggaggattt gtcccggaa agagattta 
tcgaacata ttttaccgc tgttgcttg agtccactg 
tcaattcgt ttgagattc aagcggaag aggagctcg 
agttgcagt ttgagtttt tggtgacgc cgaaaggac 
aaatgccga tggttttta aagatagag tctagatgt 
tttaattag tgtagctga tcaatatgt catgtttta 
agtggctgt gtactggca tcatgtgtt cattttctt 
tcattccac tattttaat tttttaata aagttgttt 
tagcaac

    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