Status
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Gene information
General information
TC009450 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_007422.5: 1012160..1017444
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
    		TC009450
    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
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    Email
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    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.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01556

    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: 0.0% (includes death as pupa, adult)

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: 4 - Number of animals showing the phenotype: 4
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): more than 80%

    larval musculature partially not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    gena triplet gena triplet posterior not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head size decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    antenna sometimes not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    head shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    legs shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

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

    Fertility
    egg production: number no/almost no eggs -
    tropharium size decreased - Number of animals showing the phenotype: 3

    mature egg not present - Number of animals showing the phenotype: 3
    vitellogenic egg chamber number decreased - Number of animals showing the phenotype: 3
    previtellogenic egg chamber number decreased - Number of animals showing the phenotype: 3
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009450 RA
      MSDYSAVAP PPQQNFGPS SAFAAALQR AKQIAAKIN 
PGSTNPADN RPKRPLEDG PEPDAKKGP STSGPPPQL 
PPPGNRPPP SQGGMGGPP MGGGPQLNE DIKVPDKMV 
GLIIGRGGE QITRLQSES GCKIQMAPD SQGMPDRVC 
SLSGTKEAI NRAKELIMN IVHQRGRTE GLGGLDLGP 
NMGHNNYPG MNNMNQGMG GGGGGGGGG GGGRNFVEI 
MIPGPKVGL IIGKGGETI KQLQEKSGA KMVVIQDGP 
NQEQEKPLR ISGDPSKVE YAKQLVYDL IAEKEMQNY 
NRRGGGGRQ DDRQQYNDY GGGGGNEAE VLVPRQAVG 
VVIGKGGDM IKKIQAETG ARVQFQQAR EEGPGERRC 
YLSGTPKQV EQARQRIEE LIDSVHRRD GGDGPGQGR 
GRGRGGDRY DSRGGSNRN GGGQDYGGW DDRRQQQAP 
QEVTFVVPS SKCGVIIGR GGETIKQIN QQSGAHCEL 
DRRSQNNQN SNEKTFIIR GDPDQIEAA KRIISDKVQ 
MPLNFVPVG GPAMSNNMQ TAYPGMAPQ SYNPQNWGM 
PAYQQQWNA PSQSADAPT QQNAMQVNP STGQPDYSL 
QWAEYYRSL GMHREAEMI EQQAKSKGM SSSAPGQPQ 
AGATAGSGP APAATPTGA ASNGGQPDY SAQWAEYYR 
SIGKHKEAE AIEAQMKSK QQSQANVQS MQGGPASSQ 
SGPVQAPAG GYQQQAYGA YQASSGYYG GQAQGGVPS 
NVPQGGYGF PAYGYGAPA PAAPPNNSD N
    CDS sequence
    • >TC009450 RA
      atgagtgat tattcagcg gtagcgccg ccacctcaa 
cagaatttt ggtccttcc tcggctttt gcggccgcc 
ctccaaaga gcaaaacaa atcgctgct aaaattaac 
ccaggatcc acaaacccg gccgataat cgaccgaaa 
aggcctcta gaagacggg ccagaaccg gatgcgaag 
aaaggtcca agcaccagt ggaccacct cctcaactg 
cctccgcct ggaaacaga ccgccgccg agccagggt 
ggcatgggt ggaccccca atgggtggc gggccgcag 
cttaatgaa gacatcaaa gtgcctgat aaaatggtt 
ggcttaata attggtcgt ggaggcgaa cagatcacg 
agacttcag tcggaatca ggctgtaaa atccaaatg 
gcacctgat tcacaggga atgccagac cgtgtatgt 
tcgctatca ggcactaaa gaggccatc aatagagcc 
aaggagctc attatgaat atcgttcat caaagaggt 
cgcacggaa gggttgggt gggctcgat ctagggcca 
aatatgggt cacaataat tacccaggg atgaacaac 
atgaaccag gggatgggt ggtggtggc ggcggcggc 
ggtggcggt ggcggcggc cgtaacttc gtcgaaatc 
atgatacct ggacccaaa gtcggtctg ataatcggt 
aaaggtggc gaaaccatc aaacaactg caggaaaaa 
agcggcgcg aaaatggtt gtgattcaa gacggtcct 
aatcaagaa caagaaaaa ccgttacgg atcagtggt 
gacccttcc aaagtcgaa tacgccaaa caattagtc 
tacgatttg attgccgag aaggagatg caaaattat 
aatcgaaga ggtggaggc gggagacaa gacgatagg 
caacagtac aacgattat ggagggggt ggtggtaat 
gaggcggag gttttagtg ccgagacag gctgtgggg 
gttgttatt ggaaaaggg ggcgatatg attaagaaa 
attcaagcg gaaactggg gcgcgggtt cagttccag 
caagccaga gaggagggg ccgggggag aggcggtgc 
tacctctca ggcaccccc aaacaagtc gaacaggct 
agacaacga atagaggaa cttatcgac agcgtccat 
cgacgagac ggcggcgac ggtcccggc caaggccgt 
ggcagagga agaggtggc gatcgttac gacagccga 
ggtggaagt aacagaaac ggcggagga caagactac 
ggcggttgg gacgacaga agacaacaa caagcacct 
caagaagtc acattcgtt gttccaagt tcgaaatgt 
ggagtaata atcgggaga ggtggcgaa acgatcaaa 
cagatcaat caacagtcc ggtgcccac tgtgagtta 
gaccgccga tcacaaaac aatcagaat tcaaacgaa 
aaaacattt ataatccgc ggcgatcct gatcaaatc 
gaagcggcc aaacgaata atcagcgat aaagtccaa 
atgcctctt aacttcgta cctgttggc ggtcctgca 
atgtcaaac aacatgcaa actgcttat cctggaatg 
gcgcctcaa tcttacaac ccccaaaat tggggcatg 
cctgcttac caacaacaa tggaacgcc ccctcgcaa 
agtgccgac gcccccaca caacaaaac gccatgcag 
gttaacccc tcaactgga cagcctgac tactcgcta 
cagtgggca gagtattac aggtcctta ggaatgcac 
agggaagcg gaaatgata gaacaacag gcaaaatcg 
aagggaatg tcctcgtcg gcccccggc caaccccaa 
gccggtgcg acggcaggt tccggtcca gcacctgca 
gcaaccccc actggtgct gcatccaat ggtggccaa 
ccagattac agtgcccag tgggcggag tattatcgt 
agtatagga aaacataaa gaagctgaa gcgatagaa 
gcacaaatg aaatcgaag caacagtcc caagccaac 
gtgcaatcg atgcaagga ggcccagct tcgtcccag 
tccggccct gtccaagcc ccagcaggt ggttaccag 
cagcaagcc tatggtgca tatcaagct tcaagtggt 
tactacggt ggacaggcg caaggtggg gtccccagc 
aacgtcccc caagggggc tacggcttc ccggcgtac 
ggttacgga gcacccgcc cctgcagcc ccccctaac 
aactccgac aactaa
    mRNA sequence
    • >TC009450 RA
      cacgtttgt acgcgggcg actgggcga caccatttt 
ctgttttct atgtggaca aaattttat taatggtga 
taaaaaatg agtgattat tcagcggta gcgccgcca 
cctcaacag aattttggt ccttcctcg gcttttgcg 
gccgccctc caaagagca aaacaaatc gctgctaaa 
attaaccca ggatccaca aacccggcc gataatcga 
ccgaaaagg cctctagaa gacgggcca gaaccggat 
gcgaagaaa ggtccaagc accagtgga ccacctcct 
caactgcct ccgcctgga aacagaccg ccgccgagc 
cagggtggc atgggtgga cccccaatg ggtggcggg 
ccgcagctt aatgaagac atcaaagtg cctgataaa 
atggttggc ttaataatt ggtcgtgga ggcgaacag 
atcacgaga cttcagtcg gaatcaggc tgtaaaatc 
caaatggca cctgattca cagggaatg ccagaccgt 
gtatgttcg ctatcaggc actaaagag gccatcaat 
agagccaag gagctcatt atgaatatc gttcatcaa 
agaggtcgc acggaaggg ttgggtggg ctcgatcta 
gggccaaat atgggtcac aataattac ccagggatg 
aacaacatg aaccagggg atgggtggt ggtggcggc 
ggcggcggt ggcggtggc ggcggccgt aacttcgtc 
gaaatcatg atacctgga cccaaagtc ggtctgata 
atcggtaaa ggtggcgaa accatcaaa caactgcag 
gaaaaaagc ggcgcgaaa atggttgtg attcaagac 
ggtcctaat caagaacaa gaaaaaccg ttacggatc 
agtggtgac ccttccaaa gtcgaatac gccaaacaa 
ttagtctac gatttgatt gccgagaag gagatgcaa 
aattataat cgaagaggt ggaggcggg agacaagac 
gataggcaa cagtacaac gattatgga gggggtggt 
ggtaatgag gcggaggtt ttagtgccg agacaggct 
gtgggggtt gttattgga aaagggggc gatatgatt 
aagaaaatt caagcggaa actggggcg cgggttcag 
ttccagcaa gccagagag gaggggccg ggggagagg 
cggtgctac ctctcaggc acccccaaa caagtcgaa 
caggctaga caacgaata gaggaactt atcgacagc 
gtccatcga cgagacggc ggcgacggt cccggccaa 
ggccgtggc agaggaaga ggtggcgat cgttacgac 
agccgaggt ggaagtaac agaaacggc ggaggacaa 
gactacggc ggttgggac gacagaaga caacaacaa 
gcacctcaa gaagtcaca ttcgttgtt ccaagttcg 
aaatgtgga gtaataatc gggagaggt ggcgaaacg 
atcaaacag atcaatcaa cagtccggt gcccactgt 
gagttagac cgccgatca caaaacaat cagaattca 
aacgaaaaa acatttata atccgcggc gatcctgat 
caaatcgaa gcggccaaa cgaataatc agcgataaa 
gtccaaatg cctcttaac ttcgtacct gttggcggt 
cctgcaatg tcaaacaac atgcaaact gcttatcct 
ggaatggcg cctcaatct tacaacccc caaaattgg 
ggcatgcct gcttaccaa caacaatgg aacgccccc 
tcgcaaagt gccgacgcc cccacacaa caaaacgcc 
atgcaggtt aacccctca actggacag cctgactac 
tcgctacag tgggcagag tattacagg tccttagga 
atgcacagg gaagcggaa atgatagaa caacaggca 
aaatcgaag ggaatgtcc tcgtcggcc cccggccaa 
ccccaagcc ggtgcgacg gcaggttcc ggtccagca 
cctgcagca acccccact ggtgctgca tccaatggt 
ggccaacca gattacagt gcccagtgg gcggagtat 
tatcgtagt ataggaaaa cataaagaa gctgaagcg 
atagaagca caaatgaaa tcgaagcaa cagtcccaa 
gccaacgtg caatcgatg caaggaggc ccagcttcg 
tcccagtcc ggccctgtc caagcccca gcaggtggt 
taccagcag caagcctat ggtgcatat caagcttca 
agtggttac tacggtgga caggcgcaa ggtggggtc 
cccagcaac gtcccccaa gggggctac ggcttcccg 
gcgtacggt tacggagca cccgcccct gcagccccc 
cctaacaac tccgacaac taagactct acgtgtaag 
taaaaattt tgcttgtat ataatacgg acgtgtcgc 
ttcctta
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