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Gene information
General information
TC030543 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: 2264088..2265965
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
    		TC030543
    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
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    Email
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    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_06367

    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: 30.0% (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

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    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: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030543 RA
      MLNIRKVVV GISGGVDSA VAALLLKKR GYDIQGVFM 
QNWDIADEK GYCSADADY KDAALVCDK LDIKLTHVN 
FVKHYWNEV FSNLIKEYE TGNTPNPDV LCNRNIKFN 
YFYKYARNE LGADAIATG HYARTSFGS YLEHYNPEK 
GVRLLNAVD WFKDQTFFL CQVNQEALQ RTMFPLGDL 
MKPEVKKIA RENGLEKIA RKKESMGIC FIGNRKFQD 
FIREYIDDK PGDFVDVDT AKVVGQHNG VHQWTLGQR 
ARLHSYESP YFVARKDVD KNIIYVVKG TKHPLLYTN 
IILTSEPHW IHSQPPDLQ NGVLECDFK FQHTKYWVK 
CQVCQTSKG LIIKVNRYK RAITPGQFA VLSKDGECL 
GGARIINTG VSHFSLYYL ENNGLGSVS HILKKYVNV 
TQGEDELTD NEDMKHRAV NRC
    CDS sequence
    • >TC030543 RA
      atgttaaac atccgaaag gtggtcgtg ggcatatct 
gggggcgtc gatagcgcc gttgcggca cttttattg 
aaaaaacgc ggttatgat atacagggt gttttcatg 
caaaactgg gacattgcg gacgaaaag ggctactgt 
tcggctgac gctgactac aaagacgct gctctagtg 
tgtgacaaa ctggacatt aaactaact cacgtcaat 
tttgtcaaa cattactgg aacgaagtg tttagcaat 
ttaatcaaa gaatatgag accggcaac acgccaaac 
cctgacgtt ctatgcaat cgtaacatt aaatttaat 
tatttttac aaatacgcg agaaatgag ctaggggct 
gacgctatc gcgaccgga cattacgca aggactagt 
ttcgggtct tatcttgaa cattataac ccggaaaag 
ggggtaaga ctactaaac gcagttgat tggttcaaa 
gaccaaacg ttcttcttg tgccaagtc aatcaagaa 
gctttgcaa cgtacaatg ttcccattg ggcgattta 
atgaagccg gaagtgaaa aaaattgca agggaaaac 
ggacttgaa aaaatcgca aggaagaag gagagtatg 
gggatctgt tttatcggc aatcgcaaa tttcaagac 
tttattaga gaatatatt gatgataaa ccgggcgat 
ttcgtggac gttgacact gcgaaagtc gtgggtcaa 
cacaatggg gtgcaccag tggactttg gggcaaagg 
gcgcgcctc cacagctac gaaagccct tatttcgtg 
gcccggaaa gacgtagac aagaacata atttacgta 
gtcaaaggg acaaaacac ccgttactt tacacgaac 
ataattttg accagtgag ccccactgg atccactca 
cagccccct gatttacaa aacggggtt ttggagtgc 
gatttcaag ttccaacac accaaatat tgggtcaaa 
tgccaggtg tgccaaaca agtaaagga ctgattatt 
aaagtgaat aggtacaag agggccatc actccggga 
cagttcgct gtcttgtcg aaagatggc gagtgtctc 
ggaggggct cgaataatt aacacggga gtttcacac 
ttctcgcta tattatttg gagaataat ggtctaggg 
agtgtctcc cacattttg aaaaaatat gtcaatgtg 
acgcaaggt gaagacgag cttactgat aatgaagat 
atgaagcac agagctgta aatagatgt tag
    mRNA sequence
    • >TC030543 RA
      caagattac aaaaatgaa tatcgtttc cctgttatt 
ggacactct aaacaaatc ataatttaa ataattatt 
aaaacgtga tctccgttt tggcgcatt ttttcgctt 
gttaccgct gatcaaccc agttgtgct accgctgac 
ttttgtcga attttgttg gttatgttc ctttaaacg 
gcgaaaaaa gcatgttaa acatccgaa aggtggtcg 
tgggcatat ctgggggcg tcgatagcg ccgttgcgg 
cacttttat tgaaaaaac gcggttatg atatacagg 
gtgttttca tgcaaaact gggacattg cggacgaaa 
agggctact gttcggctg acgctgact acaaagacg 
ctgctctag tgtgtgaca aactggaca ttaaactaa 
ctcacgtca attttgtca aacattact ggaacgaag 
tgtttagca atttaatca aagaatatg agaccggca 
acacgccaa accctgacg ttctatgca atcgtaaca 
ttaaattta attattttt acaaatacg cgagaaatg 
agctagggg ctgacgcta tcgcgaccg gacattacg 
caaggacta gtttcgggt cttatcttg aacattata 
acccggaaa agggggtaa gactactaa acgcagttg 
attggttca aagaccaaa cgttcttct tgtgccaag 
tcaatcaag aagctttgc aacgtacaa tgttcccat 
tgggcgatt taatgaagc cggaagtga aaaaaattg 
caagggaaa acggacttg aaaaaatcg caaggaaga 
aggagagta tggggatct gttttatcg gcaatcgca 
aatttcaag actttatta gagaatata ttgatgata 
aaccgggcg atttcgtgg acgttgaca ctgcgaaag 
tcgtgggtc aacacaatg gggtgcacc agtggactt 
tggggcaaa gggcgcgcc tccacagct acgaaagcc 
cttatttcg tggcccgga aagacgtag acaagaaca 
taatttacg tagtcaaag ggacaaaac acccgttac 
tttacacga acataattt tgaccagtg agccccact 
ggatccact cacagcccc ctgatttac aaaacgggg 
ttttggagt gcgatttca agttccaac acaccaaat 
attgggtca aatgccagg tgtgccaaa caagtaaag 
gactgatta ttaaagtga ataggtaca agagggcca 
tcactccgg gacagttcg ctgtcttgt cgaaagatg 
gcgagtgtc tcggagggg ctcgaataa ttaacacgg 
gagtttcac acttctcgc tatattatt tggagaata 
atggtctag ggagtgtct cccacattt tgaaaaaat 
atgtcaatg tgacgcaag gtgaagacg agcttactg 
ataatgaag atatgaagc acagagctg taaatagat 
gttagtaaa tcagcgctt tttcttatt cggactccg 
cgaccgctt cctcctatc ctcgtcctc tgacacgct 
gtcttcagc ggagtaatc cgaccc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY