Status
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Gene information
General information
TC005133 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.

NW_015450232.1: 114557..116751
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
    		TC005133
    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_03910

    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: 10.0% (includes death as pupa, adult)

    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 embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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 total percentage of affected eggs/embryos/larvae on slide - 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: 20.0% (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: 2 (11 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005133 RA
      MTKACLFVI FTLFQAGFL LGVPEVQLP TGVIRGRED 
TTVNNKQYF AFEKVPYAA PPIGVLRFK APVPPPNWE 
EPLDTVNLD VSCYQVSGN SDAESEDCL YINVFTPQL 
PSGTTNVSL PVMLFIHGG GFMFGSGRN TYSDYIIEE 
NVIFATINY RLGPFGFLS TEDHYIPGN NGLKDQHMA 
IKWTHSNIH LFGGDPDKI TIMGQSAGS ASVAYHLLN 
QQSQGLFQS AILESGSFL SPFAFQRRA REIAFATAA 
FLNDTFDTT ENSKELYEF LKGVDAKDL DLASQKYHE 
SETLESAQI LTGRYYSPV IEVKNPDAF LTKKMYGLL 
KAGNLVRVP ILIGINSEE GLVYNTNPD ILTQNMATF 
DENVSWLVP KDMMLIDDQ PLLEMGTQI KTMYVGSGN 
LSEHIGDGV RYYSDHSFT RSIIKTAEL YSNFSETFF 
YQFSYDGPL GGVNIHYDG AENVGHAEE LSYLFCHGS 
GCNRDDIPD SDKLTRQRL IKLWTNFAK YQNPTPQPE 
ELLQNVTWP KVSTESGDF LYLDIDENL EVKNHPKEE 
TYSKWVELY ESLGYDNFD TY
    CDS sequence
    • >TC005133 RA
      atgacaaaa gcatgtttg tttgtaatt ttcacacta 
ttccaagcc ggttttttg cttggggtc cctgaggtc 
caactcccg actggagtg atcaggggc cgtgaagac 
acaacagtt aacaataaa caatacttt gcttttgaa 
aaagttcca tatgcggct cccccaatt ggagtcttg 
cgttttaaa gccccggta ccacctcca aattgggag 
gaaccactt gatacagtc aatttggat gtttcttgt 
taccaagtt agcggaaat tcagacgct gagtctgag 
gattgtctt tatatcaat gtttttaca ccacagctt 
ccaagtggt accaccaat gttagttta ccagttatg 
ttatttata catggtggg gggtttatg tttggttct 
ggtcgaaac acttattcg gattatatc attgaggaa 
aatgtgatt tttgcaaca attaactac agattggga 
ccatttggt ttcctatca actgaggac cactatatt 
ccgggaaac aatggtctt aaggaccag cacatggct 
ataaaatgg acccatagc aacatacat ttattcgga 
ggtgaccct gataagata acaataatg ggtcaaagt 
gccgggagt gcttctgtt gcctatcac ttactaaat 
caacaatca caaggattg tttcaaagc gctattttg 
gaaagtggt tcgtttttg agccctttt gcgttccaa 
agacgcgca agagaaatt gcgtttgcc accgctgct 
tttctcaac gatactttt gacacaaca gagaattcg 
aaagaattg tacgaattt ttgaaagga gttgacgcg 
aaagattta gatctggct tcacagaag taccatgaa 
tcggaaaca cttgaaagt gcccaaatt ttgactgga 
aggtattat tcaccggtg attgaagta aaaaatccg 
gacgctttc cttacgaaa aaaatgtac ggtttgttg 
aaggctgga aatttggtg cgagtacca attttgatt 
gggattaac tcggaggaa ggactcgtg tacaatact 
aatccggat attttaaca caaaacatg gcgactttt 
gacgaaaat gtgtcttgg ttggtaccc aaagacatg 
atgctgatt gatgaccaa ccccttcta gagatggga 
acccaaatt aaaacaatg tatgttggt tctggcaat 
ttgagtgag catatcggt gacggcgtt cgctattac 
agtgaccac tcttttacc cgatctatc atcaaaacc 
gccgaactt tactccaac ttttctgaa actttcttt 
taccaattt tcctacgat ggccctctt ggaggtgta 
aacatccat tacgatggg gctgaaaat gtcggtcac 
gccgaagaa ctgagttat ttattttgt catggttct 
ggctgcaat cgtgacgat attcctgat tcggataaa 
ttaactcgt caaagattg attaaactt tggacgaat 
tttgcaaaa tatcagaat ccgacaccg caacctgaa 
gaactctta caaaatgtt acttggcct aaagtttcg 
actgagagt ggcgatttt ttgtatcta gatatcgac 
gaaaatttg gaggtaaaa aatcacccg aaggaggaa 
acttattcg aaatgggtg gagctctat gaaagtctt 
ggatatgat aattttgat acatattaa
    mRNA sequence
    • >TC005133 RA
      tgataatca atttattat cacacaatg catcaattt 
cgtttaaaa ataatcaaa acactcatt caacttgag 
actatagca acatgacaa aagcatgtt tgtttgtaa 
ttttcacac tattccaag ccggttttt tgcttgggg 
tccctgagg tccaactcc cgactggag tgatcaggg 
gccgtgaag acacaacag ttaacaata aacaatact 
ttgcttttg aaaaagttc catatgcgg ctcccccaa 
ttggagtct tgcgtttta aagccccgg taccacctc 
caaattggg aggaaccac ttgatacag tcaatttgg 
atgtttctt gttaccaag ttagcggaa attcagacg 
ctgagtctg aggattgtc tttatatca atgttttta 
caccacagc ttccaagtg gtaccacca atgttagtt 
taccagtta tgttattta tacatggtg gggggttta 
tgtttggtt ctggtcgaa acacttatt cggattata 
tcattgagg aaaatgtga tttttgcaa caattaact 
acagattgg gaccatttg gtttcctat caactgagg 
accactata ttccgggaa acaatggtc ttaaggacc 
agcacatgg ctataaaat ggacccata gcaacatac 
atttattcg gaggtgacc ctgataaga taacaataa 
tgggtcaaa gtgccggga gtgcttctg ttgcctatc 
acttactaa atcaacaat cacaaggat tgtttcaaa 
gcgctattt tggaaagtg gttcgtttt tgagccctt 
ttgcgttcc aaagacgcg caagagaaa ttgcgtttg 
ccaccgctg cttttctca acgatactt ttgacacaa 
cagagaatt cgaaagaat tgtacgaat ttttgaaag 
gagttgacg cgaaagatt tagatctgg cttcacaga 
agtaccatg aatcggaaa cacttgaaa gtgcccaaa 
ttttgactg gaaggtatt attcaccgg tgattgaag 
taaaaaatc cggacgctt tccttacga aaaaaatgt 
acggtttgt tgaaggctg gaaatttgg tgcgagtac 
caattttga ttgggatta actcggagg aaggactcg 
tgtacaata ctaatccgg atattttaa cacaaaaca 
tggcgactt ttgacgaaa atgtgtctt ggttggtac 
ccaaagaca tgatgctga ttgatgacc aaccccttc 
tagagatgg gaacccaaa ttaaaacaa tgtatgttg 
gttctggca atttgagtg agcatatcg gtgacggcg 
ttcgctatt acagtgacc actctttta cccgatcta 
tcatcaaaa ccgccgaac tttactcca acttttctg 
aaactttct tttaccaat tttcctacg atggccctc 
ttggaggtg taaacatcc attacgatg gggctgaaa 
atgtcggtc acgccgaag aactgagtt atttatttt 
gtcatggtt ctggctgca atcgtgacg atattcctg 
attcggata aattaactc gtcaaagat tgattaaac 
tttggacga attttgcaa aatatcaga atccgacac 
cgcaacctg aagaactct tacaaaatg ttacttggc 
ctaaagttt cgactgaga gtggcgatt ttttgtatc 
tagatatcg acgaaaatt tggaggtaa aaaatcacc 
cgaaggagg aaacttatt cgaaatggg tggagctct 
atgaaagtc ttggatatg ataattttg atacatatt 
aagtgtaat taaactttt atagtaaaa ataaacatg 
ttacccggc g

    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