Status
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Gene information
General information
TC007154 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_007419.2: 8413588..8425070
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
    		TC007154
    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
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    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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    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_02775

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007154 RA
      MISESGEST ASRTVGFTS AGEDSLFHK LKTSELLKH 
LLKKSGDSQ NDSVNKVAK VPPKISSGL ESVLSGAKD 
SDDGIMDEL GDSDGEVRN YRDNFQRLF SDESSQSNQ 
NDGLSEEEL PVIPDEGLS SETVDFILA EAEKNLHIQ 
SPPSSQVSQ DSDSYEFTE LLPVSNLAF LPQPSTSKN 
DVSPGATFD PTAADDSLR RSTESINTS QKSAGNSDS 
DSDIDNEMV LVPSDPLEW TNTHIKSWL SWCSRKFSL 
NPKPDFEKF PTTGKELCE LTRTDFETK AGCERTGTI 
LAKHIAHLR HSVTGRSTS PLNVECKVF EDDDDDEKD 
PYQLLNAAS SRLVAQGSG QIQLWQFLL ELLGDSSNS 
ACITWEGTN GEFKLTDPD EVARRWGER KSKPNMNYD 
KLSRALRYY YDKNIMSKV HGKRYAYKF DFHGLMAAC 
QAQAQGQTD VSPGYHKYQ PHQSELGAA LYPTGHATA 
PKIPSILPP GAQHTQTGL FPPPSYWPY SPGSFDPRG 
PFN
    CDS sequence
    • >TC007154 RA
      atgatctct gaaagtggt gaatcaacg gccagtaga 
accgttggg ttcacatcg gccggtgag gactcattg 
ttccacaaa ctgaaaact tccgaattg ctcaagcat 
ctgctgaaa aaatcgggt gattcacaa aatgattca 
gttaataag gtcgcgaaa gtaccgccg aaaatcagt 
tcgggactt gaatcagtg ctaagtggt gccaaagac 
tccgatgat gggattatg gacgagctg ggtgacagt 
gatggtgaa gtgcggaat tacagagac aactttcag 
cgacttttc agcgacgaa agctcgcag tcgaatcaa 
aatgacgga ctgtcggaa gaggagctt ccggttatc 
ccggacgaa ggtttgtcg agtgagacc gtcgatttt 
atactcgca gaggccgaa aaaaatcta cacattcaa 
tcgccaccc tctagtcaa gtgtcgcag gacagcgac 
agctacgaa ttcaccgaa ttactgcca gtctcaaat 
ttggcattt ttgccgcaa ccgtcaacc tcgaagaat 
gatgtctca cctggcgcc acgtttgat ccgacggct 
gccgatgat agtttaagg agatctaca gagagtatt 
aacacaagc caaaaatct gctggaaac agcgacagt 
gatagcgat attgataat gaaatggtt ttagttcct 
tccgatccc ctcgaatgg accaacacc catattaaa 
tcttggctg tcatggtgt tctcggaaa ttctctctg 
aatccgaaa cccgatttc gagaagttc cccacgacc 
ggaaaagaa ctatgcgaa ctaacaaga actgatttc 
gagaccaaa gcaggttgt gaaagaacc ggcacaatt 
cttgccaaa cacatcgcc catcttcgc cacagcgtc 
accggaaga tcgaccagt cctctgaac gtcgaatgc 
aaggtcttc gaagacgac gacgacgac gagaaagat 
ccctatcaa ctgttaaac gcggcttca agccgattg 
gtggcccaa ggatccggc cagatccaa ctgtggcag 
tttctcttg gaactgctt ggcgattcg tcgaattca 
gcgtgtata acgtgggaa ggcaccaat ggagaattc 
aagctcacc gatccggac gaagttgcc cggagatgg 
ggagaacga aaatctaaa ccaaatatg aactatgat 
aaactcagc agggcgctt aggtattac tacgacaag 
aacataatg tcgaaggtc cacggaaaa agatacgct 
tacaaattt gacttccac ggtctcatg gcagcgtgc 
caagcccag gcccaaggc cagactgac gtctctcca 
ggataccat aaatatcag ccgcaccaa agtgaatta 
ggagctgct ttatatccc acaggacac gccaccgct 
cccaaaata cccagcatc cttcctccg ggtgcccaa 
cacacccaa acaggatta ttcccaccg cctagctac 
tggccgtat tcacctgga tcgttcgat ccccgcgga 
cccttcaat tga
    mRNA sequence
    • >TC007154 RA
      aaagtcgag tgcgttgca catgaaatt aaacttttc 
cgggaattg atgcgtgaa tcagttagc aatgatctc 
tgaaagtgg tgaatcaac ggccagtag aaccgttgg 
gttcacatc ggccggtga ggactcatt gttccacaa 
actgaaaac ttccgaatt gctcaagca tctgctgaa 
aaaatcggg tgattcaca aaatgattc agttaataa 
ggtcgcgaa agtaccgcc gaaaatcag ttcgggact 
tgaatcagt gctaagtgg tgccaaaga ctccgatga 
tgggattat ggacgagct gggtgacag tgatggtga 
agtgcggaa ttacagaga caactttca gcgactttt 
cagcgacga aagctcgca gtcgaatca aaatgacgg 
actgtcgga agaggagct tccggttat cccggacga 
aggtttgtc gagtgagac cgtcgattt tatactcgc 
agaggccga aaaaaatct acacattca atcgccacc 
ctctagtca agtgtcgca ggacagcga cagctacga 
attcaccga attactgcc agtctcaaa tttggcatt 
tttgccgca accgtcaac ctcgaagaa tgatgtctc 
acctggcgc cacgtttga tccgacggc tgccgatga 
tagtttaag gagatctac agagagtat taacacaag 
ccaaaaatc tgctggaaa cagcgacag tgatagcga 
tattgataa tgaaatggt tttagttcc ttccgatcc 
cctcgaatg gaccaacac ccatattaa atcttggct 
gtcatggtg ttctcggaa attctctct gaatccgaa 
acccgattt cgagaagtt ccccacgac cggaaaaga 
actatgcga actaacaag aactgattt cgagaccaa 
agcaggttg tgaaagaac cggcacaat tcttgccaa 
acacatcgc ccatcttcg ccacagcgt caccggaag 
atcgaccag tcctctgaa cgtcgaatg caaggtctt 
cgaagacga cgacgacga cgagaaaga tccctatca 
actgttaaa cgcggcttc aagccgatt ggtggccca 
aggatccgg ccagatcca actgtggca gtttctctt 
ggaactgct tggcgattc gtcgaattc agcgtgtat 
aacgtggga aggcaccaa tggagaatt caagctcac 
cgatccgga cgaagttgc ccggagatg gggagaacg 
aaaatctaa accaaatat gaactatga taaactcag 
cagggcgct taggtatta ctacgacaa gaacataat 
gtcgaaggt ccacggaaa aagatacgc ttacaaatt 
tgacttcca cggtctcat ggcagcgtg ccaagccca 
ggcccaagg ccagactga cgtctctcc aggatacca 
taaatatca gccgcacca aagtgaatt aggagctgc 
tttatatcc cacaggaca cgccaccgc tcccaaaat 
acccagcat ccttcctcc gggtgccca acacaccca 
aacaggatt attcccacc gcctagcta ctggccgta 
ttcacctgg atcgttcga tccccgcgg acccttcaa 
ttgatccag taacattcc agttgttag aaatgtgta 
tatcgagtt acgttcctt gtttttcca ataaattgt 
acatattgt 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