Status
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Gene information
General information
TC010500 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: 15426052..15450209
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
    		TC010500
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04855

    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

    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: 20.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 3 (41 dpi)
    Days post injection

    Pupal morphology
    wings posterior bent - Number of animals showing the phenotype: 8

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010500 RA
      MARSVVVFA SIATCLALA ADERQKRAG DLDRGPPTA 
QARRLEMST EFFLVPAAS GAPATVTAC AGCLDRIGG 
VFRNEAWVI PVLTLSAVT MALIIGFEV FVLCKAWRT 
TPSRRHLFL GQMLLLGLF TCAGLGAVY AAAPTQLTC 
AVVRFGTGV AYAVVFASL LVKCVFLIS LNGGVYLPA 
PYQGLLLLF AILIQVAIG AQWLLTSPP LVDNVTFEA 
VPSKHRLLV TAEDVAHPT VLPLCRTAY VDILLSLIY 
VIFLILFVT VLAVKSRGI RDNYREATY IGLSVGCSI 
PTWLVWILS GFVVSERHR DACIAFGLV ISSALVFLI 
MFMPKGRQL AAMGKEGVY VEDREERFS SLSRAGSGY 
SPSFFHFKP MKYGLGHGT SHKHQHTVT TIGGGGVFL 
RPDDGNVYT TLEPTLSSN PNVYFQRGN AVHPGMMY
    CDS sequence
    • >TC010500 RA
      atggctcga tccgtcgtg gtgttcgcc tcgatcgcg 
acatgcttg gcgctggct gcagatgag cgccagaag 
cgggccggc gacctggac cgcggaccc cctacagcc 
caggcccgc cgtctggag atgagcacc gagttcttc 
ctggtgccg gcggcgagc ggcgccccc gcgaccgtg 
accgcgtgc gcgggctgc ctggaccgc atcggcggc 
gtcttccgc aacgaggcc tgggtcatc cccgtgctg 
accctctcg gccgtcacc atggcgctc atcatcggc 
ttcgaggtg ttcgtgctg tgcaaggcc tggcgcacg 
acgccgagc cgccgccac ctcttcctg ggccagatg 
ctgctgctg gggctgttc acctgcgcc ggcctgggg 
gcggtctac gccgccgcc cccacgcag ctcacctgc 
gcggtggtg cgcttcggc acgggggtg gcctacgcc 
gtggtgttc gcctcgctg ctggtcaag tgcgtcttc 
ctcatcagt ctcaacggg ggcgtgtac ctgccggcg 
ccctaccag gggctgctg ctgctcttc gccatcctc 
atccaggtg gccatcggc gcgcagtgg ctgctcacg 
agcccgccg ctcgtcgac aacgtcacg ttcgaggcc 
gtgcccagc aagcaccgg ctcctggtg accgctgag 
gacgtcgcc caccccacg gtgttaccc ttgtgccga 
accgcttac gtcgacatc ctcctctcg ctgatctac 
gtgatcttc ttgattcta ttcgtgacg gtcctagcc 
gtaaagtcc cgcgggatc agagacaat tatcgggaa 
gcgacctat atcggactt tctgttgga tgcagcatt 
cccacgtgg ttagtgtgg atcttgagt gggttcgtg 
gtcagcgag agacacaga gacgcctgc attgctttc 
ggactagtt atttcttcg gcgttggtg ttcctcatc 
atgtttatg ccgaaagga agacagcta gccgccatg 
ggcaaagaa ggcgtctac gtcgaggac agagaagaa 
cgttttagt tctttgagt agggcaggc tcgggttat 
tccccgtcc ttttttcat ttcaaaccc atgaaatat 
gggctcggc catggcacc tcgcataaa catcagcac 
accgtcacc accatcgga ggaggtggt gtgtttttg 
cggcctgac gacggcaac gtctacaca actctagag 
ccgactcta agtagtaac cccaatgtg tatttccag 
agaggaaat gctgtacat cccgggatg atgtattaa
    mRNA sequence
    • >TC010500 RA
      caaatccat ccaaatctg tcacctgtg cgaatcgtc 
aaaaattta tcgtctccg aatttaccg tttggagta 
gctgtcccc tcggccacg actcgccaa gagtccgtc 
gaaacgtcg aataaaccg tcggtgagt ccggctgtt 
aatgagatg atgttgcag atgtgaaga ggagggcga 
tggcgaagt ggagttagt atggctcga tccgtcgtg 
gtgttcgcc tcgatcgcg acatgcttg gcgctggct 
gcagatgag cgccagaag cgggccggc gacctggac 
cgcggaccc cctacagcc caggcccgc cgtctggag 
atgagcacc gagttcttc ctggtgccg gcggcgagc 
ggcgccccc gcgaccgtg accgcgtgc gcgggctgc 
ctggaccgc atcggcggc gtcttccgc aacgaggcc 
tgggtcatc cccgtgctg accctctcg gccgtcacc 
atggcgctc atcatcggc ttcgaggtg ttcgtgctg 
tgcaaggcc tggcgcacg acgccgagc cgccgccac 
ctcttcctg ggccagatg ctgctgctg gggctgttc 
acctgcgcc ggcctgggg gcggtctac gccgccgcc 
cccacgcag ctcacctgc gcggtggtg cgcttcggc 
acgggggtg gcctacgcc gtggtgttc gcctcgctg 
ctggtcaag tgcgtcttc ctcatcagt ctcaacggg 
ggcgtgtac ctgccggcg ccctaccag gggctgctg 
ctgctcttc gccatcctc atccaggtg gccatcggc 
gcgcagtgg ctgctcacg agcccgccg ctcgtcgac 
aacgtcacg ttcgaggcc gtgcccagc aagcaccgg 
ctcctggtg accgctgag gacgtcgcc caccccacg 
gtgttaccc ttgtgccga accgcttac gtcgacatc 
ctcctctcg ctgatctac gtgatcttc ttgattcta 
ttcgtgacg gtcctagcc gtaaagtcc cgcgggatc 
agagacaat tatcgggaa gcgacctat atcggactt 
tctgttgga tgcagcatt cccacgtgg ttagtgtgg 
atcttgagt gggttcgtg gtcagcgag agacacaga 
gacgcctgc attgctttc ggactagtt atttcttcg 
gcgttggtg ttcctcatc atgtttatg ccgaaagga 
agacagcta gccgccatg ggcaaagaa ggcgtctac 
gtcgaggac agagaagaa cgttttagt tctttgagt 
agggcaggc tcgggttat tccccgtcc ttttttcat 
ttcaaaccc atgaaatat gggctcggc catggcacc 
tcgcataaa catcagcac accgtcacc accatcgga 
ggaggtggt gtgtttttg cggcctgac gacggcaac 
gtctacaca actctagag ccgactcta agtagtaac 
cccaatgtg tatttccag agaggaaat gctgtacat 
cccgggatg atgtattaa taaacattt ttaattaat 
agtgttatt taggtccta tttattgct ttttgcgct 
cgataagct gcgaagagt gatctctga taaacaatt 
aaatgagtt ttgtcattg tacaaatcg atatatttc 
cgtagtgat taatgttag ccattttac ttaattatg 
caatagcca ttttttgta aaataacaa cgaatgact 
gatcaattt accatattt taatctcat gtattacct 
tgtaagtat agcgagtaa gtgtacaaa tattttatt 
gtgagataa atagtttat agtgtcagc tgtgtcgtt 
tatttcttt gatcaacgg ttagttaat tgaccca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY
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