Status
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Gene information
General information
TC006192 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_007423.3: 4797139..4805755
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
    		TC006192
    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
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    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_01011

    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: 50.0% (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: 3 (9 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, no cuticle, no fluorescence - 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%
    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): 30% - 50%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%
    head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 12.5% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006192 RA
      MTITCPKGL LSTRFVIGI MLFTACFVS YTMRVNISI 
NLIAMVEPT SANSNTSEP ECARINREN SGNETYQAQ 
TSAPDYGTR YDWDSNVQS LILGSYFWG YTITCIPGG 
VLAEKFGPT RTVMIATLA SGFLTLLGP LMASWSYIS 
LILSRFLTG LCGGVVYPC LHCLVSRWA PPEEKGKFI 
GALLGGTFG TVATWPLLG AIIEALGWS WSFFINGGL 
VLLWCILWI VLVADRPEG HPRISEEEK IYIVKSLGD 
SVKRTKSLP PYRNIFLSI PVWSLIVLH FGNLWGLYF 
LMTAGPKFL STVLGFNLG HTGILAALP YLARLIFGF 
IFGLIGDFI RQRKLLSTI IVRKGFILF SHIIPGGLL 
LVLNLTGCD ITWSIVLLT LSLGSNGAS TLTNLQNSQ 
DLAPNYAGT LYGIANCVG STTGFISPI IVGQLTAKN 
NGMSEWHII FCIGALVYI VCGLVFCVF GSAEIQTWN 
TPKENQKMG IQNPAFDNA SEITVKVGE ADENTKV
    CDS sequence
    • >TC006192 RA
      atgaccatc acttgtcca aaaggttta ctctcaaca 
cgcttcgtg attggcata atgctattc acggcgtgt 
tttgtatct tacacgatg cgagtcaac atttcgata 
aacctcata gccatggtg gagcccacc agtgcaaat 
tcaaacact tcggaaccg gaatgtgcc cgaatcaac 
cgcgaaaac tccggaaat gaaacatac caagcccaa 
acatccgca cctgattac ggcactcgc tacgattgg 
gactcaaac gtgcaaagc ctcatccta ggctcctac 
ttctggggc tacaccatc acatgcatc cctggcgga 
gtcctggcc gaaaaattc ggcccgact cgaactgtc 
atgatcgca actttagcc agcggtttt ttgactctt 
ttgggccct ttgatggcc tcctggagc tacatttcg 
ttgattttg tcccgcttt ttgaccgga ttgtgtggg 
ggggttgtt tacccgtgc ttgcattgc ctggtgtct 
cggtgggcc cctccggag gaaaaaggc aagtttatt 
ggggccctg ctgggtggg actttcggt acagtggcc 
acgtggccc cttctgggg gccattatc gaggctttg 
gggtggtcg tggtcgttt tttattaac ggagggttg 
gtgctactg tggtgcatt ttgtggatt gttttggtg 
gccgatcgg ccggagggg catccaagg ataagtgaa 
gaggagaaa atttatata gtgaaaagt ttaggcgat 
tctgttaag cgaactaag agtttgccc ccttatcgt 
aacattttc ctgtcaata ccagtctgg tctttgatt 
gtgctacac tttggtaat ttatggggg ctgtatttt 
ttgatgact gccggcccg aaatttctc tcaaccgtc 
ctggggttc aatttgggg cataccggg attttggca 
gcactgccc tatttggca cgactcatt tttggtttt 
atttttgga cttattggc gattttatc agacagagg 
aaactccta tcgactata atagtccgg aaaggattt 
atcctattt tcacacatc atccccggg gggctcctc 
ctggtgcta aacctgacc ggctgtgac atcacctgg 
tcaatagtg ctcctcacc ctatcgctg ggttccaac 
ggggcttcg acgttaaca aatttgcaa aattcgcaa 
gatctggcg ccgaattac gccggaacc ctgtatgga 
atcgcaaac tgcgttggg agcaccacc ggatttatc 
tcaccgata attgtgggc caacttacc gctaaaaat 
aacggaatg agcgagtgg cacattatt ttctgcatc 
ggtgccttg gtttacata gtttgtggt ctagtgttt 
tgcgttttt ggaagtgcg gaaattcag acttggaac 
acgcccaaa gaaaaccaa aaaatgggg atccaaaat 
ccggctttc gacaacgca agtgagatt acagtcaaa 
gttggcgag gctgatgaa aataccaaa gtttaa
    mRNA sequence
    • >TC006192 RA
      taacggtag gtaagtact tcactcagt tttcgcgac 
tgtgaaagt tgaatttgt gtgcgaaaa tcatccaga 
aagatccac gacggttga ctttattta aacagtatc 
aattcaagc cgtgacaaa attgtcctg aatttcgcc 
aaagcaata tttagaaaa acaattcgc acctcgtta 
agcaaactt acaagaaat tcttcccgt taaattatg 
cgatcaaga tgaccatca cttgtccaa aaggtttac 
tctcaacac gcttcgtga ttggcataa tgctattca 
cggcgtgtt ttgtatctt acacgatgc gagtcaaca 
tttcgataa acctcatag ccatggtgg agcccacca 
gtgcaaatt caaacactt cggaaccgg aatgtgccc 
gaatcaacc gcgaaaact ccggaaatg aaacatacc 
aagcccaaa catccgcac ctgattacg gcactcgct 
acgattggg actcaaacg tgcaaagcc tcatcctag 
gctcctact tctggggct acaccatca catgcatcc 
ctggcggag tcctggccg aaaaattcg gcccgactc 
gaactgtca tgatcgcaa ctttagcca gcggttttt 
tgactcttt tgggccctt tgatggcct cctggagct 
acatttcgt tgattttgt cccgctttt tgaccggat 
tgtgtgggg gggttgttt acccgtgct tgcattgcc 
tggtgtctc ggtgggccc ctccggagg aaaaaggca 
agtttattg gggccctgc tgggtggga ctttcggta 
cagtggcca cgtggcccc ttctggggg ccattatcg 
aggctttgg ggtggtcgt ggtcgtttt ttattaacg 
gagggttgg tgctactgt ggtgcattt tgtggattg 
ttttggtgg ccgatcggc cggaggggc atccaagga 
taagtgaag aggagaaaa tttatatag tgaaaagtt 
taggcgatt ctgttaagc gaactaaga gtttgcccc 
cttatcgta acattttcc tgtcaatac cagtctggt 
ctttgattg tgctacact ttggtaatt tatgggggc 
tgtattttt tgatgactg ccggcccga aatttctct 
caaccgtcc tggggttca atttggggc ataccggga 
ttttggcag cactgccct atttggcac gactcattt 
ttggtttta tttttggac ttattggcg attttatca 
gacagagga aactcctat cgactataa tagtccgga 
aaggattta tcctatttt cacacatca tccccgggg 
ggctcctcc tggtgctaa acctgaccg gctgtgaca 
tcacctggt caatagtgc tcctcaccc tatcgctgg 
gttccaacg gggcttcga cgttaacaa atttgcaaa 
attcgcaag atctggcgc cgaattacg ccggaaccc 
tgtatggaa tcgcaaact gcgttggga gcaccaccg 
gatttatct caccgataa ttgtgggcc aacttaccg 
ctaaaaata acggaatga gcgagtggc acattattt 
tctgcatcg gtgccttgg tttacatag tttgtggtc 
tagtgtttt gcgtttttg gaagtgcgg aaattcaga 
cttggaaca cgcccaaag aaaaccaaa aaatgggga 
tccaaaatc cggctttcg acaacgcaa gtgagatta 
cagtcaaag ttggcgagg ctgatgaaa ataccaaag 
tttaatttt atttattta agtgagttg tgacagtat 
tttatctaa taataaaga tattttttc acg

    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