Status
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Gene information
General information
TC000912 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_007417.3: 8314775..8339431
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
    		TC000912
    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
    {{ blurEvidenceResult }}
    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
    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_03102

    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

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 thorax musculature partially not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    thorax musculature dorsal partiallynot present - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    thorax musculature irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    larval musculature dorsal partiallynot fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     prothorax decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    prothoracic leg shortened - Penetrance (percentage of animals/eggs on slide): more than 80%

    Comment: Complete leg reduced to stumps.
    legs femur decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    legs shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    legs tibiotarsus decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    legs pretarsus not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs potentiallytransformed - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: Coxa seems unaffected. Trochanter, femur, tibiatarsus, pretarsus mostly not present, potentially transformed to antenna.
    affected eggs/embryos/larvae - 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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000912 RA
      MSSYFANSY MPDMRNGGV VSAEHPHQH QHYGAAVQV 
PQGGGAVQP DPGSCDPSV GLRQGIPPH HYGGPPSGG 
QPPQGMPYP RFPPYDRMD IRAAGYYGP QQQMDGQEY 
RPDSPSSMH MANTAAPNG HQTQVVYAS CKLQAAAVT 
QNGVLGPTG SPPLTTQSM NNHHMGHHM QEQHPQHHQ 
PHHQQQHMM YGGQQGANM HQQGPPHQQ PPIQQQPNQ 
GQQPPGNTA AALPSPLYP WMRSQFERK RGRQTYTRY 
QTLELEKEF HFNRYLTRR RRIEIAHAL CLTERQIKI 
WFQNRRMKW KKENKTKGE GGSEGGGDD ISPQGSPQ
    CDS sequence
    • >TC000912 RA
      atgagttca tatttcgcc aattcctat atgccggac 
atgcgaaat gggggtgta gtttccgcg gagcatccg 
caccagcac cagcactac ggcgccgcc gtccaggtg 
ccccagggg ggcggcgcc gtgcagccc gacccgggg 
tcgtgcgac ccctcggtg gggctgcgc cagggcatc 
cctccgcac cactatggg gggcccccg tcgggcggg 
cagccgccc cagggcatg ccctacccc cgcttcccg 
ccgtacgac cggatggac atccgcgcc gccggctac 
tacggcccc cagcagcag atggacggc caggagtac 
cgccccgac agccccagc agcatgcac atggccaac 
accgccgcc cccaacggc caccaaacg caggtggtc 
tacgccagc tgtaagctg caagccgcc gccgtcacg 
cagaacggg gtgctgggg cccaccggg agtccgccc 
ctgaccacc cagtcgatg aacaaccat cacatggga 
caccacatg caggagcag cacccccag caccaccag 
ccccaccac cagcagcag cacatgatg tacgggggg 
cagcaaggc gccaacatg caccagcaa ggacccccg 
caccagcag ccccccata cagcaacag cccaaccaa 
gggcagcag cccccgggg aacacggcg gcggctctg 
cccagcccc ctgtacccc tggatgagg agccaattt 
gagcggaag cgcggccgt cagacgtac acccgctac 
cagacgtta gaactggag aaagagttc catttcaac 
cggtatttg acgagacgg cgacgcatc gagatcgcc 
cacgcgctg tgtttaacc gaaagacag atcaagata 
tggtttcaa aaccggcgt atgaaatgg aaaaaggag 
aacaagacc aaaggcgaa ggcggctcg gaaggcggt 
ggagacgac atcagcccc cagggctcc cctcagtga
    mRNA sequence
    • >TC000912 RA
      caggaggtg tgcgtgcgc tcggcatat agtgatgtt 
tgaaacgct gacagcttg ccagtacta ttacaagct 
cgtccacca atcccagtg caaactggc tgtgcccct 
ctcgatttt gacagatcc acgcgatta tgaatcacc 
aagtttgac agttgagtg cgcgacgcg gtgcagcat 
cgtcttggt ggaagcgcg cgcgatgtg tggacgtcg 
tcgtcgtca gcgtccagg aggtggtgc ggcggcttg 
tgtggtccg cggtaattg acatgttaa gcttcgcca 
taacgcgat ttaaaacgg accggctgc aagcctcga 
tggggactc gaataatgc cgaaacagg tttacgaat 
tttccgcgt gaagttatt atcgtttaa tcgtgtcgt 
cgccgtctt cggagattc ccaatcagg tagagtcct 
ttaatgaca attcttgta aaacaaaac gctgcttaa 
tgagaacgt acggataaa tactgaccg cacgctaaa 
tccatccga agccaatta ttcaatata attaccaca 
ctttgttgc tattaatcc aattaacta ttaataaac 
caaatcgtt gaagcttga atttgagta gaatgcggt 
cgaatattt tctctcggg tcgttagcg agtcttgtt 
tttagaaac gacaatttt ttcggttgt tttctcatc 
cgttacgtt ttgttactt cttggaata aatatctag 
atcttgttt ggaacgact tggcctttg acacgaccg 
cattaaaac aagactcac ccgaaaaca tttatacac 
ctagtgtag tagggctgt atatgtcac gtagttgag 
gtttctttt ccaaccact taacgactt tgatgaatt 
gcttagcag gaggaaagt cgagaaagc tggaaacgg 
ccaaatatg gcaggaaaa atgccggtt caagggtta 
aaagccgag ttaaggaat tcccgcttg ttggctttg 
ttattgtct ttgggtttt cgaaaattc ttgagttag 
ttaactagt tgcaagtgt cgcattccg cggccacgt 
gtttacatg aagcgtgga acccaaatg atgatggtt 
tcagtttcc atatgtcag tcatttcag ttccttaga 
gaaaatatt tagtttgcc atttgaact tgagtgcaa 
atcattgac tggcgtctt gttgcaggg ccctatgcc 
gatgaggaa cgccgtcgc cgccacgtc ccccaggtc 
cctcttgtg aaccctagt gtacagtga ccgtggcga 
tgacaaaat gtctttcta gtgcatagt gctctctta 
aaactgtgt ctctgtgaa gaattatga gttcatatt 
tcgccaatt cctatatgc cggacatgc gaaatgggg 
gtgtagttt ccgcggagc atccgcacc agcaccagc 
actacggcg ccgccgtcc aggtgcccc aggggggcg 
gcgccgtgc agcccgacc cggggtcgt gcgacccct 
cggtggggc tgcgccagg gcatccctc cgcaccact 
atggggggc ccccgtcgg gcgggcagc cgccccagg 
gcatgccct acccccgct tcccgccgt acgaccgga 
tggacatcc gcgccgccg gctactacg gcccccagc 
agcagatgg acggccagg agtaccgcc ccgacagcc 
ccagcagca tgcacatgg ccaacaccg ccgccccca 
acggccacc aaacgcagg tggtctacg ccagctgta 
agctgcaag ccgccgccg tcacgcaga acggggtgc 
tggggccca ccgggagtc cgcccctga ccacccagt 
cgatgaaca accatcaca tgggacacc acatgcagg 
agcagcacc cccagcacc accagcccc accaccagc 
agcagcaca tgatgtacg gggggcagc aaggcgcca 
acatgcacc agcaaggac ccccgcacc agcagcccc 
ccatacagc aacagccca accaagggc agcagcccc 
cggggaaca cggcggcgg ctctgccca gccccctgt 
acccctgga tgaggagcc aatttgagc ggaagcgcg 
gccgtcaga cgtacaccc gctaccaga cgttagaac 
tggagaaag agttccatt tcaaccggt atttgacga 
gacggcgac gcatcgaga tcgcccacg cgctgtgtt 
taaccgaaa gacagatca agatatggt ttcaaaacc 
ggcgtatga aatggaaaa aggagaaca agaccaaag 
gcgaaggcg gctcggaag gcggtggag acgacatca 
gcccccagg gctcccctc agtgaactc ctcgtcacg 
ataaccatg tacctaatt acacattgt agtcattgc 
attttcttt tgccgggat ctccgacga gaaggtgcg 
ctctttcgg caggaactc tccaaattc cccaaccac 
aatgacctc ttcaacaag tcctctgtg cataagtcg 
atagaattt agttccgat gaacgcgac tcatcgaat 
ttatagttt tatttattt atatattgt atagatagt 
agatattat gcgcgaatt tatatttga tggacacta 
cacggattc atttagagg ccagtgcta cgtgcaatc 
agtgatgca gacgaactg cccagtgat taaaaataa 
aattttttg tataaatat tttctataa tgttaaaaa 
cgagtggtc gctacggtt atgaagctc cactgcaga 
ttttcaggt cagtgaatg agttgtttt ttttcaaag 
ctgacgaag cgttttttt acaatgttt ccagtgagt 
gtgaactct ttagacacc tgagatagc tacgaaagt 
gtcgttcgg catagaatt gtttactta aagtgtaga 
tatttcgaa tgaatgtat atttggttt taatactaa 
taatgatgt aaataaatc cggtaacaa aagaaaagg 
atatgaaat atacgatat tattaaaat tacgcactt 
tcatgccaa aggtagagt aacgttatc catgtagga 
cgttaacaa tactcaaac actttaatt agtaggaat 
ttgacgcat tcggagtat ccaactttt ttttaacct 
gtttttttc tgaaaaaaa gagacaaat attttatat 
accatttaa ttggccgca attggagac gaacagtct 
ttaaaattg ctagtgata acagtaacg aaatacgta 
acgctgcta caaatcgag tatacgtaa ctaattatt 
ttaatataa aaatcagag ctatgtaag aacggttag 
gcaaattaa ataggtttc aaaattgag ttattgaga 
gtcgaggtt ccagagccc ctatttaag ttggttaac 
catttgtat acacaacta tttatacta ctataaatt 
aggatttgc agtggcatg ctgtatatt tgtacctat 
atggataaa ttagagaat agttctttg tgctgtggt 
gtaatattt tagattaga agtactaag tttggccga 
cacttaatt tcggacaaa ttaccattt tgtaaatga 
acaactgta acataaatt tatcgttta accatcccg 
cataaaact ttattttga tttaaaaac caacgaaac 
tttaagtac tttaatact tggatttct gtcttgtgg 
atttcaact tatatatac cgtacatat aattaatat 
atgtataaa taaaatatt attgtaaat

    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