Status
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Gene information
General information
TC012316 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_007424.3: 4103332..4109888
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
    		TC012316
    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
    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_06419

    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: 2 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Fertility
    egg chamber shape irregular - Number of animals showing the phenotype: 4

    egg chamber potentially fused - Number of animals showing the phenotype: 4
    egg chamber number decreased - Number of animals showing the phenotype: 4
    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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt not fulfilled (died with pupal and larval features) - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012316 RA
      MELGDHVYA AERIIKKRV RRGVVEYYV KWKGWSQKH 
NTWEPEENI LDSRLIDLF ERSQKLDPH KRGPKKKDR 
HPEKQQTET EDEGRASGE ESQDDGVTS AETSKSTPP 
TKSESAPNP DDEDTRAES EVSSKSPVP TGVDDNENS 
NSSSSEDRR PILARLEIG TKRKAEVLS KESGKIGVT 
ITTSSPTSA SPPPNKVQK ASTKQQQQA TSTNRANGR 
QKNEEEASS AIPSASSPA VLTATTPRT STDKSRSPV 
DATLPHSST KEPASPKPV ASRTDDKRP ATEPPVSSP 
PPPPPPKKP EVSKEEPEK ECSAGDKSG DVKVAVNGH 
NNNNMTDEL PVLTSPGSE YWLARNPVA DQVFITDVT 
VNLKTVTIR ECKTEKGFF KDRDDNSHS SDIV
    CDS sequence
    • >TC012316 RA
      atggaactt ggtgaccat gtttatgcc gccgaaagg 
attataaaa aaacgagtc cgtcggggt gtcgtcgag 
tactacgtg aaatggaaa ggctggagc caaaagcac 
aacacatgg gaaccggag gaaaacatc ctcgactcg 
cggctgatc gacctcttc gaacgtagc caaaagctc 
gacccccac aagcgcggt ccgaaaaag aaggaccga 
caccccgaa aagcagcaa acggaaacg gaagacgaa 
ggacgtgca agcggcgaa gaaagtcaa gatgatggc 
gttacaagc gccgaaacc agcaaatca actccacca 
acaaaatcc gaatcagca ccaaatcca gacgatgaa 
gatacaaga gccgaatcc gaagtatcg tcaaaatca 
ccagtgcca acaggagtc gacgataac gaaaattca 
aacagttcg agtagcgaa gatcgtaga ccgattttg 
gcacgattg gaaatcggg accaagaga aaagcggaa 
gttttgtcg aaagaaagt ggaaaaatt ggagttacg 
atcaccacc agtagtccc accagcgcc agtccccca 
ccaaataag gtgcagaag gcatcaacc aagcagcag 
cagcaagca acgtcgaca aaccgtgcc aacggccgc 
cagaaaaac gaagaggaa gcctcatca gcaataccg 
tcggcgtca agtccggca gttctcacc gccacaact 
ccccggact tccaccgat aagagtcga agtccggtc 
gacgcaacc ctccctcac tcctcgact aaagagccg 
gcgtctccc aaaccggtg gcgtcgcga accgacgat 
aaacggccc gccaccgag cccccggtg tcgtcgcca 
ccgccgccg ccgcccccg aaaaaaccc gaagtgagt 
aaagaggaa ccggaaaaa gagtgcagt gcgggcgat 
aagagcggg gacgttaaa gtggcggta aacggacac 
aataataat aacatgact gacgaactt ccggtgttg 
acgagtccg ggctcggag tactggctg gcgaggaat 
cccgtcgcc gatcaggtt tttataact gatgttacg 
gtgaacttg aagactgtc acgattcgg gagtgcaag 
accgagaag ggttttttt aaagaccgg gacgataat 
agtcattct agtgatatt gtttga
    mRNA sequence
    • >TC012316 RA
      cgataaccg caagaacgt ccccaaagt gctttttgt 
gcaaccttt tggtgattt acttgaaga ccatgtgcg 
attgccttt tgtaaatcg cgaaatgaa ttaatttcg 
ccaaaaata tctttgcgc tgtgcgcac agtgcatcc 
aaccgggca cgtcaaatt ccccaaagc caatgtgat 
gtgagtgag ttgttgtgg acgcaattt gtgaatttc 
gcggaaaac tccgtattg tttttctcg ggaaaatgc 
tgagaaaag ctgagttcg atttgtggt tgtgcactt 
agatgagta tctggtgcg caataattt tcggagttt 
ttatgcgtc cccatcagc cataacaat ggaacttgg 
tgaccatgt ttatgccgc cgaaaggat tataaaaaa 
acgagtccg tcggggtgt cgtcgagta ctacgtgaa 
atggaaagg ctggagcca aaagcacaa cacatggga 
accggagga aaacatcct cgactcgcg gctgatcga 
cctcttcga acgtagcca aaagctcga cccccacaa 
gcgcggtcc gaaaaagaa ggaccgaca ccccgaaaa 
gcagcaaac ggaaacgga agacgaagg acgtgcaag 
cggcgaaga aagtcaaga tgatggcgt tacaagcgc 
cgaaaccag caaatcaac tccaccaac aaaatccga 
atcagcacc aaatccaga cgatgaaga tacaagagc 
cgaatccga agtatcgtc aaaatcacc agtgccaac 
aggagtcga cgataacga aaattcaaa cagttcgag 
tagcgaaga tcgtagacc gattttggc acgattgga 
aatcgggac caagagaaa agcggaagt tttgtcgaa 
agaaagtgg aaaaattgg agttacgat caccaccag 
tagtcccac cagcgccag tcccccacc aaataaggt 
gcagaaggc atcaaccaa gcagcagca gcaagcaac 
gtcgacaaa ccgtgccaa cggccgcca gaaaaacga 
agaggaagc ctcatcagc aataccgtc ggcgtcaag 
tccggcagt tctcaccgc cacaactcc ccggacttc 
caccgataa gagtcgaag tccggtcga cgcaaccct 
ccctcactc ctcgactaa agagccggc gtctcccaa 
accggtggc gtcgcgaac cgacgataa acggcccgc 
caccgagcc cccggtgtc gtcgccacc gccgccgcc 
gcccccgaa aaaacccga agtgagtaa agaggaacc 
ggaaaaaga gtgcagtgc gggcgataa gagcgggga 
cgttaaagt ggcggtaaa cggacacaa taataataa 
catgactga cgaacttcc ggtgttgac gagtccggg 
ctcggagta ctggctggc gaggaatcc cgtcgccga 
tcaggtttt tataactga tgttacggt gaacttgaa 
gactgtcac gattcggga gtgcaagac cgagaaggg 
tttttttaa agaccggga cgataatag tcattctag 
tgatattgt ttgactcta tttatttcg gtagtttta 
agtcgtgaa acgtagtga tgggcttaa gatatccgc 
gagggtatc gtacagggt agctccgtt tgcgagcaa 
actttcccc aaggatctg ataggtttt taatagact 
gttggtgct aatatggat tttccgact accagcctg 
aacgagtag atcaccatt cgattttta tagtgtcct 
tcccgattc aatttttta tttctgtga taacaaagt 
cgtactaac tttttaaca tgtcagctc ccccaaaca 
tttttttcg ttttagcaa gccagtctg ctcatttag 
gcccgtggt tttaattta tgactagtt attatgtta 
agcagcaac aagatcggt tgtaaaatt tttcattcc 
acggtgtga gagccggtt cgattgtat atactggat 
atatctact aatatgcat agttttttg tatttcttt 
ttttactgt accttctag tattagacg attgttgaa 
acttattta ttaattgta ttaatttat ttcttgtat 
tattatata atacagtaa taccacaac ttacgttct 
gattttagt tttgtcttt acaatcaca cgttttaat 
gttaataca acttcagct aagataatt ttacttaac 
aaatttgta tatattgtg taaaatata attgagttg 
aaaatagtt gtttccgtt aatataagg tatttttga 
aataaaaag tagtcgcag gc

    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