Status
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Gene information
General information
TC014211 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_007416.3: 3241108..3244560
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
    		TC014211
    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_05587

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    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
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014211 RA
      MCDDIIDNV TDINNTIFD WNELIPAVV VYSVTFVLG 
LVGNCLIIF TTFQYRGMQ SVTNVFLSS LASADLLLI 
IICIPVKLA KLFSYIWIM GFFICKMIH YLQNISAIC 
SVMTLTAIS IERYYAIVY PMKAKYICT INQAKRIIG 
VIWIMSFVL AVPTLFAQS HMRVSNNND PTEYYICVK 
DWDSTEVWR FHEIYMLVV ILIVPFVIM TFSYTTICW 
EVWKVMERR SVMTSKHVL SRNRSSTTN SEDKYLENF 
ILTENKQPP PPPDPGHDD SNMVKQVIY MLVAVVVLF 
AICWTPLLI DNLLTAYEI HPNIRCGFL KYMSIAFHL 
LAYFNSCIN PIIYGFMSK SFRESFKLV LCSCCSSDL 
RGHRGSNYS LRYVSRTGS QTRTTSYR
    CDS sequence
    • >TC014211 RA
      atgtgtgat gatattatt gacaacgta acggacata 
aacaacaca atatttgat tggaacgaa ttaataccg 
gcagttgtt gtttatagt gtaacattt gtattgggg 
ctcgttggc aattgccta attattttc acgactttc 
cagtaccga gggatgcaa agtgtgact aacgttttc 
ctttccagt ctagcatcg gccgatttg ctcctcatc 
atcatctgc atccctgtc aagttggct aagcttttc 
tcgtacatc tggatcatg ggatttttc atatgcaag 
atgatccac tatttgcaa aatatatcc gcaatttgt 
tccgtgatg actctcaca gcgattagt attgaacgc 
tactacgcg atcgtgtac cccatgaag gccaaatac 
atctgcaca atcaatcaa gcgaaacgc ataattggg 
gtcatctgg ataatgtct ttcgttctg gcagtgcca 
acgctgttt gcccagagc cacatgcgg gtctcaaat 
aacaacgac cccacggag tactacata tgcgtgaaa 
gactgggat tctaccgaa gtttggagg tttcacgaa 
atttacatg cttgttgta atactgatt gtgccgttc 
gttattatg actttttca tacactacc atttgctgg 
gaagtgtgg aaagtaatg gaaagacgg tcggttatg 
accagcaaa catgtgctt tcgcggaat cggagcagc 
accaccaac agtgaagac aagtacctg gaaaatttt 
atattaaca gaaaacaag cagccgccg ccgccccca 
gacccgggc cacgacgac agcaacatg gtgaagcaa 
gtgatttac atgcttgtt gcagtcgtc gtgttgttt 
gcgatttgt tggaccccc cttttaatc gacaatctg 
ctaacagcg tacgagatc caccccaat attcggtgc 
ggtttcctt aaatacatg tcaatagct ttccattta 
ctagcatat ttcaacagt tgtattaat ccaattatt 
tatggcttc atgtccaaa agcttcaga gaaagtttc 
aagcttgta ctgtgctcg tgttgttcg tccgacctc 
cgaggacat agagggagc aactacagt ttgaggtac 
gtctcaagg acagggtct cagacaagg acgacgtcc 
tacagatga
    mRNA sequence
    • >TC014211 RA
      gcgcacaca acccggaaa agtgtggtg tcaaacaaa 
cttaaacaa attcgtacc aaaaatcgt aaaccaatg 
acatttttg aaatgttcg caatatggc tattaaata 
ttcgccaag tggtttgtg attgaaggg gcaatatct 
tgattaaat ccttgagga acgtgcaga cgaatgaaa 
ctccaatta agttcactt cccttcgtg taataacaa 
tgtgtgatg atattattg acaacgtaa cggacataa 
acaacacaa tatttgatt ggaacgaat taataccgg 
cagttgttg tttatagtg taacatttg tattggggc 
tcgttggca attgcctaa ttattttca cgactttcc 
agtaccgag ggatgcaaa gtgtgacta acgttttcc 
tttccagtc tagcatcgg ccgatttgc tcctcatca 
tcatctgca tccctgtca agttggcta agcttttct 
cgtacatct ggatcatgg gatttttca tatgcaaga 
tgatccact atttgcaaa atatatccg caatttgtt 
ccgtgatga ctctcacag cgattagta ttgaacgct 
actacgcga tcgtgtacc ccatgaagg ccaaataca 
tctgcacaa tcaatcaag cgaaacgca taattgggg 
tcatctgga taatgtctt tcgttctgg cagtgccaa 
cgctgtttg cccagagcc acatgcggg tctcaaata 
acaacgacc ccacggagt actacatat gcgtgaaag 
actgggatt ctaccgaag tttggaggt ttcacgaaa 
tttacatgc ttgttgtaa tactgattg tgccgttcg 
ttattatga ctttttcat acactacca tttgctggg 
aagtgtgga aagtaatgg aaagacggt cggttatga 
ccagcaaac atgtgcttt cgcggaatc ggagcagca 
ccaccaaca gtgaagaca agtacctgg aaaatttta 
tattaacag aaaacaagc agccgccgc cgcccccag 
acccgggcc acgacgaca gcaacatgg tgaagcaag 
tgatttaca tgcttgttg cagtcgtcg tgttgtttg 
cgatttgtt ggacccccc ttttaatcg acaatctgc 
taacagcgt acgagatcc accccaata ttcggtgcg 
gtttcctta aatacatgt caatagctt tccatttac 
tagcatatt tcaacagtt gtattaatc caattattt 
atggcttca tgtccaaaa gcttcagag aaagtttca 
agcttgtac tgtgctcgt gttgttcgt ccgacctcc 
gaggacata gagggagca actacagtt tgaggtacg 
tctcaagga cagggtctc agacaagga cgacgtcct 
acagatgaa ggaatagga gagggaaat aaataactt 
agccaacag tattcacta acctaacgt ttattttta 
cacactgta tgaaccaca aataagttt caaagcatt 
aatttattc actactgtg tatatataa aatgagtgc 
attaataaa gtgataact ttgac

    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