Status
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Gene information
General information
TC011321 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: 3394364..3401271
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
    		TC011321
    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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01840

    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: 2 (3 dpi)
    Days post injection

    Fertility
    mature egg deposition >5 number 2nd lateral oviduct: number 1st lateral oviduct: blocked - Number of animals showing the phenotype: 4
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    legs random sometimesshape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (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: 4 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 5 (19 dpi)
    Days post injection

    Adult morphology
    elytra not closed - Number of animals showing the phenotype: 9


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011321 RA
      MANSLLLQA GLLICSICA VRSEVFTAL ADLEDLLET 
EALLINTLE NYIKAEEEK LGYLKRYAA IYKNQHDKA 
SENVQVYVA NPINAYTLV KRLTADWRE VENLINSDL 
SLDCLANIT HIKETMKFP TDEDLNGAA VALTRLQDT 
YRLDTSSLA RGELNGVKY SSELSAADC FELGRQSYN 
NEDYYHTQL WMREADARL KREANETVD RSDILEYLA 
FSTYKQGNI PLALDLTNK LLEILPSHP RALGNKIYY 
EDELQKSVN TKKKGDDGG EPEGESKPY VDPYGREFY 
EQLCRGEIS LPVEKASKL KCFYLSRNQ PFLKIAPFK 
VEEAHHRPD IFIFRDVLA DSEIATIKR MAQPRFKRA 
TVQNTDTGE LEIAQYRIS KSAWLKEEE HKHIADVSQ 
RVSDMTGLT MSTAEELQV VNYGIGGHY EPHFDFARR 
DERNAFKSL GTGNRIATV LFYMSDVEQ GGATVFPSI 
QVSLWPQKG SAAFWYNLH PSGDGDKMT RHAACPVLT 
GSKWVSNKW IHERGQEFR RPCTLERPS EDLVA
    CDS sequence
    • >TC011321 RA
      atggcaaat tctttgttg ttgcaagcg ggtttattg 
atttgctcg atttgtgca gttaggagt gaggttttc 
actgcactt gctgattta gaggatcta ctagagacc 
gaagcgcta ctaatcaac actctcgaa aattatatt 
aaagcggaa gaagaaaaa ttagggtat ttgaagaga 
tatgcggca atttacaaa aatcagcac gacaaagcg 
tcagaaaac gtgcaagtg tacgtcgcc aatccgatt 
aatgcttac actcttgtt aaaagactg acagcggat 
tggcgagaa gtggaaaat ttgatcaac agtgatctg 
agtttagat tgtttagcg aatataact catattaag 
gaaactatg aaatttccg actgacgaa gaccttaac 
ggggctgcc gtagccttg actcgcctc caggacacc 
tacagactt gacacctcg tcgttggct cgcggcgaa 
ctaaacgga gtgaaatac agctccgaa ctgagcgct 
gctgattgt ttcgaatta ggcagacaa tcctacaac 
aatgaggat tattatcac acccaattg tggatgcga 
gaagccgac gctcggctc aagcgagag gctaatgaa 
acggtagac aggagcgat atattggaa tacttggct 
ttttcgacg tacaaacaa ggtaacatc cctctagca 
ctggatctc acaaacaaa ctcctcgaa atactccca 
agtcatcca cgcgcactt ggaaacaag atctactac 
gaggatgag ttacagaaa tccgtaaat acgaagaaa 
aagggagat gatggaggg gagcctgaa ggggaatct 
aaaccatac gttgatcct tacggacgg gagttttac 
gaacagttg tgtcggggg gaaatttcc ctcccggtg 
gagaaagcc tccaaactg aagtgtttt tacctcagt 
aggaaccag ccgttcctt aaaattgct cccttcaaa 
gttgaagaa gctcaccac aggcctgat attttcatt 
tttcgggat gtgttggcc gatagcgag attgcaacg 
atcaaacga atggcacaa cctaggttt aagagagcc 
accgttcaa aacactgac actggcgaa ctagagatc 
gcccaatac agaatcagc aaatcagcc tggctcaag 
gaggaagaa cacaaacac atcgctgat gtttcccaa 
agagtcagc gatatgaca gggctgaca atgtcaaca 
gctgaggaa ctccaagtc gtcaattac ggaattggc 
ggccattac gaaccccat tttgatttt gctcggcga 
gacgagaga aacgccttc aaaagcctg ggaactggc 
aacagaatc gcaaccgtg ctcttctac atgagcgac 
gtggagcaa ggcggcgcc acggttttc cccagcatc 
caggtctct ttgtggccc caaaaaggc tcagctgcc 
ttctggtac aaccttcac cctagtggt gacggcgat 
aaaatgaca aggcatgcg gcatgtccg gttctaacc 
ggctccaaa tgggtttcg aataagtgg atccatgag 
cgagggcaa gaatttcgg aggccttgt actttggaa 
agacccagt gaggaccta gtggcgtga
    mRNA sequence
    • >TC011321 RA
      gtccaaaac gaattagat gattagttg tatttattt 
attcactat tattgtcta tattttgta atacaaggc 
gaacacaaa atggcaaat tctttgttg ttgcaagcg 
ggtttattg atttgctcg atttgtgca gttaggagt 
gaggttttc actgcactt gctgattta gaggatcta 
ctagagacc gaagcgcta ctaatcaac actctcgaa 
aattatatt aaagcggaa gaagaaaaa ttagggtat 
ttgaagaga tatgcggca atttacaaa aatcagcac 
gacaaagcg tcagaaaac gtgcaagtg tacgtcgcc 
aatccgatt aatgcttac actcttgtt aaaagactg 
acagcggat tggcgagaa gtggaaaat ttgatcaac 
agtgatctg agtttagat tgtttagcg aatataact 
catattaag gaaactatg aaatttccg actgacgaa 
gaccttaac ggggctgcc gtagccttg actcgcctc 
caggacacc tacagactt gacacctcg tcgttggct 
cgcggcgaa ctaaacgga gtgaaatac agctccgaa 
ctgagcgct gctgattgt ttcgaatta ggcagacaa 
tcctacaac aatgaggat tattatcac acccaattg 
tggatgcga gaagccgac gctcggctc aagcgagag 
gctaatgaa acggtagac aggagcgat atattggaa 
tacttggct ttttcgacg tacaaacaa ggtaacatc 
cctctagca ctggatctc acaaacaaa ctcctcgaa 
atactccca agtcatcca cgcgcactt ggaaacaag 
atctactac gaggatgag ttacagaaa tccgtaaat 
acgaagaaa aagggagat gatggaggg gagcctgaa 
ggggaatct aaaccatac gttgatcct tacggacgg 
gagttttac gaacagttg tgtcggggg gaaatttcc 
ctcccggtg gagaaagcc tccaaactg aagtgtttt 
tacctcagt aggaaccag ccgttcctt aaaattgct 
cccttcaaa gttgaagaa gctcaccac aggcctgat 
attttcatt tttcgggat gtgttggcc gatagcgag 
attgcaacg atcaaacga atggcacaa cctaggttt 
aagagagcc accgttcaa aacactgac actggcgaa 
ctagagatc gcccaatac agaatcagc aaatcagcc 
tggctcaag gaggaagaa cacaaacac atcgctgat 
gtttcccaa agagtcagc gatatgaca gggctgaca 
atgtcaaca gctgaggaa ctccaagtc gtcaattac 
ggaattggc ggccattac gaaccccat tttgatttt 
gctcggcga gacgagaga aacgccttc aaaagcctg 
ggaactggc aacagaatc gcaaccgtg ctcttctac 
atgagcgac gtggagcaa ggcggcgcc acggttttc 
cccagcatc caggtctct ttgtggccc caaaaaggc 
tcagctgcc ttctggtac aaccttcac cctagtggt 
gacggcgat aaaatgaca aggcatgcg gcatgtccg 
gttctaacc ggctccaaa tgggtttcg aataagtgg 
atccatgag cgagggcaa gaatttcgg aggccttgt 
actttggaa agacccagt gaggaccta gtggcgtga 
ctgaagact gttcctaaa tagttttac tgtatttgc 
tttaaacaa agattagct ttaatttat tttgacgtg 
tactcatat tagtgaata aagccgatt tcatact

    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