Status
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Gene information
General information
TC011861 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: 12438538..12440586
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
    		TC011861
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05117

    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: 1 (3 dpi)
    Days post injection

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

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): less than 30%

    embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    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): 30% - 50%

    affected eggs/embryos/larvae - 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
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head partiallyremaining - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    head appendages partially orientation irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    legs shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    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: 60.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 60.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011861 RA
      MCFSDNIKF AASAFNTIF ILIGGALLS IGIIYKLSF 
DQLFQVIPE AYNYLELTP ILTTIVGVA LLNAALFGF 
IIIYFERYH LKTTYCVVI LLIFTSQVC VGIFALVQT 
KDGDDLSKR IVTTTETLF NQTENGELI NAIQTSLKC 
CGPFGPTFW NETSNKPFP ESCCSDKTC TNVHPNGCR 
SSIFEFLLN SCKITGIAL LAFALIEMI GTVFMCHTF 
FRLNEASKM CLVQECVKF VVLAFNLVF VLVGAALIT 
LGSLYLANL NDITKAIPD PYDHFNLIP ILTIVIGSI 
IFLISFFGC CGACRNSPC LLSTYAVIL LIIFIAQIA 
IGVFAFLEI KNTDDLGKE VNKTIDEVF HKTSKADVE 
LINLIQQDI KCCGTDGPS FWATTPNKT IPSSCYEDQ 
KNLKGLFQE GCQGAFYNF LMDAARIIG IVVLVLAVT 
EVVGATFAL CLANSARNA LRRNDYY
    CDS sequence
    • >TC011861 RA
      atgtgtttt tcggacaat attaagttt gcggcatcg 
gcatttaac acaattttt atcctaatc ggaggagct 
ctcttatcg attggcatt atctataag ctaagcttt 
gatcagtta tttcaagtc attccggaa gcttacaat 
tacctagag cttacgccg attttgacc acaattgtg 
ggtgtcgcc cttttaaat gccgcttta ttcggcttc 
attatcatt tattttgaa cgctaccac cttaagaca 
acttactgt gtcgtaatt ttgctcatt ttcacgtcc 
caagtctgt gttggaatt ttcgccctc gtgcaaact 
aaagatggg gacgacctg tccaaacgt attgttacc 
acaacagag acacttttc aatcaaacg gaaaacgga 
gaactcatc aatgcaatc caaaccagc ttaaagtgt 
tgcggaccg tttggacca actttttgg aacgaaacc 
tcaaacaaa ccgttcccg gagtcctgc tgtagcgac 
aaaacctgc acaaacgtg caccccaac gggtgccga 
agctccatc ttcgaattt ctactaaac agttgcaaa 
ataaccggt attgcactt ctagctttc gcgctaatt 
gagatgatt ggaactgtc tttatgtgt catactttc 
tttcggttg aacgaagct tcgaaaatg tgtcttgtg 
caagaatgt gtcaagttt gtggtcctt gcgttcaat 
ctcgtattt gtgctcgtg ggggccgct cttatcacc 
ctaggcagc ctctacttg gccaactta aacgacatc 
actaaggcc atcccggac ccctacgac cacttcaat 
ctcatcccc atcctgaca atcgtcatc ggctctatc 
attttcctg atctcgttc ttcggctgc tgcggcgcc 
tgcaggaac agcccgtgt ctcctctcc acgtacgct 
gtgatcctc ctcatcatc ttcatagcc cagatagcg 
atcggagtg ttcgcgttt ttggaaatt aaaaacaca 
gacgacttg gggaaagaa gttaataag actatagat 
gaagtgttc cacaagacg tccaaagcc gatgttgaa 
cttatcaac ttgatccag caagatata aagtgttgt 
gggaccgat gggccaagt ttttgggcc actacgcca 
aataaaacc atcccgtct tcctgttac gaggaccaa 
aaaaaccta aagggtttg ttccaggaa gggtgccaa 
ggagcgttc tataatttc ctgatggat gctgccagg 
attatcggg attgttgtt ttggtcttg gcggtcact 
gaagttgtg ggggccacg tttgccttg tgtttggcg 
aactcagcg cgaaacgcc ctccgaagg aatgattac 
tattag
    mRNA sequence
    • >TC011861 RA
      aggaggaga taaagaaaa tattggcta aaatgtaga 
ataattcaa actgcgatg tgtttttcg gacaatatt 
aagtttgcg gcatcggca tttaacaca atttttatc 
ctaatcgga ggagctctc ttatcgatt ggcattatc 
tataagcta agctttgat cagttattt caagtcatt 
ccggaagct tacaattac ctagagctt acgccgatt 
ttgaccaca attgtgggt gtcgccctt ttaaatgcc 
gctttattc ggcttcatt atcatttat tttgaacgc 
taccacctt aagacaact tactgtgtc gtaattttg 
ctcattttc acgtcccaa gtctgtgtt ggaattttc 
gccctcgtg caaactaaa gatggggac gacctgtcc 
aaacgtatt gttaccaca acagagaca cttttcaat 
caaacggaa aacggagaa ctcatcaat gcaatccaa 
accagctta aagtgttgc ggaccgttt ggaccaact 
ttttggaac gaaacctca aacaaaccg ttcccggag 
tcctgctgt agcgacaaa acctgcaca aacgtgcac 
cccaacggg tgccgaagc tccatcttc gaatttcta 
ctaaacagt tgcaaaata accggtatt gcacttcta 
gctttcgcg ctaattgag atgattgga actgtcttt 
atgtgtcat actttcttt cggttgaac gaagcttcg 
aaaatgtgt cttgtgcaa gaatgtgtc aagtttgtg 
gtccttgcg ttcaatctc gtatttgtg ctcgtgggg 
gccgctctt atcacccta ggcagcctc tacttggcc 
aacttaaac gacatcact aaggccatc ccggacccc 
tacgaccac ttcaatctc atccccatc ctgacaatc 
gtcatcggc tctatcatt ttcctgatc tcgttcttc 
ggctgctgc ggcgcctgc aggaacagc ccgtgtctc 
ctctccacg tacgctgtg atcctcctc atcatcttc 
atagcccag atagcgatc ggagtgttc gcgtttttg 
gaaattaaa aacacagac gacttgggg aaagaagtt 
aataagact atagatgaa gtgttccac aagacgtcc 
aaagccgat gttgaactt atcaacttg atccagcaa 
gatataaag tgttgtggg accgatggg ccaagtttt 
tgggccact acgccaaat aaaaccatc ccgtcttcc 
tgttacgag gaccaaaaa aacctaaag ggtttgttc 
caggaaggg tgccaagga gcgttctat aatttcctg 
atggatgct gccaggatt atcgggatt gttgttttg 
gtcttggcg gtcactgaa gttgtgggg gccacgttt 
gccttgtgt ttggcgaac tcagcgcga aacgccctc 
cgaaggaat gattactat tagacatag aagtatttt 
tccaaaatt attcttgtg tgtattcct gtctgccta 
aactagact gtttacaac ttatattat ataataaga 
atatacgag tactttaca tgaaccttt gcacggagc 
aaaaacttg tgtgaaatg attttcaat aaacgattt 
attctgtg

    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