Status
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Gene information
General information
TC008664 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_007422.5: 13787628..13790225
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
    		TC008664
    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 *
    {{ blurReferenceResult }}
    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_04532

    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: 0.0% (includes death as pupa, adult)

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): 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)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection

    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008664 RA
      MGTAVSKNF ELSTNDYLL KFVSTQAIS QNDPFWNRL 
VAFNISPPM TSNDQLALE SKIENLCQL LLKNNHTSG 
NLGSIIDVF LSRATELLT ATNTDASLF IWQLFNILF 
IIRCIVKFL CETVTEEQL IEQIEVNGN GTRLETFVD 
ALVKVIVDV EVTDATYGI HLEAITTLL VFLSVQLHS 
GRKSDQSNI YRLIMRGKH TTHAPLFIK CLLTNYMKQ 
AKVPVGFGA NTGHSLVLG IAAELWSIL TFSRKSDEV 
LVSETSDYQ EVPLATQSL LLVLVLVHH WTTKNNPYR 
NSLFLCMNS ADNNPIAPI QANMFSRID YNVLYATIC 
KKASGDVTT LLLYLLIHR NDSFRAFLL SRTDLDHLI 
IPILKTLYN APNSNSHHI YMSLIILLI LSEDDSFNK 
SIHEIKLKN IVWYTERTL TEVSLGGLL VLVVIRTVQ 
YNMLKMRDK YLHTNCLAA LANMSAQFR DLHPYVSQR 
LVSLFETLA KRYQKLSTK LWNGKSEKN SEYAITVSQ 
DGDDMEQDI TVLEEVLRM VLEIFNSCL SSQLVNNPN 
LVYTLLYNK HIFEPFKEN VAFQDILQN IDIIIKYFS 
SLLDDKTQQ NEVDAYQVL NVIQQGAKR WPKDKLKKF 
PDLKFKYVE EDQPEEFFI PYVWTLVSQ QSILHWTND 
NSPLLATVC
    CDS sequence
    • >TC008664 RA
      atgggtacg gctgttagc aaaaatttt gaattgtcc 
acgaatgat tatttactt aaatttgta agcactcaa 
gcgatatca caaaatgac cccttttgg aaccgactg 
gtggctttc aacatttct ccacctatg acaagtaat 
gaccagcta gcgttagag tcaaaaatt gaaaacctt 
tgccaactg ttgctgaaa aataaccac acctcagga 
aatttgggt tcaattatt gacgtgttc ttgtcccga 
gctaccgag cttttgact gccaccaac accgacgca 
agcttattc atttggcag ttatttaac attctgttc 
attattcgc tgcattgtt aagtttctt tgcgaaacc 
gtgactgag gagcagcta atagagcaa attgaagta 
aacggcaat gggacaaga cttgagact ttcgtagac 
gctctagtt aaagttatc gtcgatgtt gaagttaca 
gatgccacg tatggcata cacctcgag gccattacc 
acacttcta gtattttta tcagtgcaa ttacattca 
gggcgaaag tcagaccaa agcaatatt tatagactt 
ataatgagg ggcaagcac acaacgcac gccccttta 
ttcatcaaa tgcttgcta actaattac atgaaacag 
gcgaaggtg ccggtgggg tttggggcc aacactggc 
cacagcctc gttctgggg atcgcagcg gaattgtgg 
tctatttta acgttcagc agaaaatcc gatgaagtt 
ttggtgtct gaaactagc gattatcag gaggtacct 
ttagccacc cagagtttg ctgctggtt ttagtgtta 
gtgcaccat tggaccact aagaacaac ccttacagg 
aatagccta tttttgtgt atgaatagt gccgacaat 
aatccaata gccccgatt caagccaat atgttttcg 
aggatagat tacaacgtt ctttacgca acaatttgc 
aaaaaagcg tcaggggac gtgaccaca ttattactc 
tatttacta atccaccgg aatgattca tttagggcc 
tttcttttg agtcgaacg gatttagat cacttgatt 
attccaatt ttgaagact ttgtataac gccccgaac 
agcaactcg catcatatc tacatgtca cttattatc 
ctactaata ttgagtgag gatgattct ttcaacaaa 
tcaatccat gaaattaaa ctgaaaaat atcgtgtgg 
tatacggag cggaccctc actgaggtc tcgcttggc 
ggcttgctg gtccttgtg gtgatacga acagtacaa 
tacaatatg ctgaaaatg cgtgataaa tacctgcac 
acaaattgt ttggcggct ttggcgaat atgtcggca 
cagtttcga gatttgcat ccgtacgtt agccaacgt 
ttggtttca ctgtttgaa actttggcg aaacggtat 
cagaaatta tccacaaag ttatggaac ggcaaaagt 
gagaagaac tcggagtac gccatcaca gtgtctcaa 
gacggtgac gatatggag caggatatc acagttctt 
gaggaggtt ttgaggatg gttttggaa attttcaat 
tcgtgtctt tccagtcag ttggtcaat aacccaaat 
ctagtttac acgcttttg tacaataaa catattttc 
gaaccgttt aaggaaaat gttgcgttt caagacata 
ctccaaaat attgacatt ataattaaa tacttttca 
agtttgttg gacgataaa acgcaacaa aacgaagtg 
gatgcctat caagttctt aacgttatt caacaaggt 
gcaaagcgg tggcctaaa gacaagttg aagaaattt 
cccgatttg aagttcaaa tatgtggag gaagatcaa 
ccagaggag tttttcata ccctatgtt tggacttta 
gttagccag caatctatc ctccactgg actaacgat 
aattcgcca ctactagcg actgtttgc taa
    mRNA sequence
    • >TC008664 RA
      gttcgttca aatgtcatt tgacaggtg acgtgttta 
ctttttacg ataaggtta tgtcctagc aaatttatg 
gaaaaaatg ttaatggtg tgcgttata cattaaaat 
tgagcgtaa ataaaaatg ggtacggct gttagcaaa 
aattttgaa ttgtccacg aatgattat ttacttaaa 
tttgtaagc actcaagcg atatcacaa aatgacccc 
ttttggaac cgactggtg gctttcaac atttctcca 
cctatgaca agtaatgac cagctagcg ttagagtca 
aaaattgaa aacctttgc caactgttg ctgaaaaat 
aaccacacc tcaggaaat ttgggttca attattgac 
gtgttcttg tcccgagct accgagctt ttgactgcc 
accaacacc gacgcaagc ttattcatt tggcagtta 
tttaacatt ctgttcatt attcgctgc attgttaag 
tttctttgc gaaaccgtg actgaggag cagctaata 
gagcaaatt gaagtaaac ggcaatggg acaagactt 
gagactttc gtagacgct ctagttaaa gttatcgtc 
gatgttgaa gttacagat gccacgtat ggcatacac 
ctcgaggcc attaccaca cttctagta tttttatca 
gtgcaatta cattcaggg cgaaagtca gaccaaagc 
aatatttat agacttata atgaggggc aagcacaca 
acgcacgcc cctttattc atcaaatgc ttgctaact 
aattacatg aaacaggcg aaggtgccg gtggggttt 
ggggccaac actggccac agcctcgtt ctggggatc 
gcagcggaa ttgtggtct attttaacg ttcagcaga 
aaatccgat gaagttttg gtgtctgaa actagcgat 
tatcaggag gtaccttta gccacccag agtttgctg 
ctggtttta gtgttagtg caccattgg accactaag 
aacaaccct tacaggaat agcctattt ttgtgtatg 
aatagtgcc gacaataat ccaatagcc ccgattcaa 
gccaatatg ttttcgagg atagattac aacgttctt 
tacgcaaca atttgcaaa aaagcgtca ggggacgtg 
accacatta ttactctat ttactaatc caccggaat 
gattcattt agggccttt cttttgagt cgaacggat 
ttagatcac ttgattatt ccaattttg aagactttg 
tataacgcc ccgaacagc aactcgcat catatctac 
atgtcactt attatccta ctaatattg agtgaggat 
gattctttc aacaaatca atccatgaa attaaactg 
aaaaatatc gtgtggtat acggagcgg accctcact 
gaggtctcg cttggcggc ttgctggtc cttgtggtg 
atacgaaca gtacaatac aatatgctg aaaatgcgt 
gataaatac ctgcacaca aattgtttg gcggctttg 
gcgaatatg tcggcacag tttcgagat ttgcatccg 
tacgttagc caacgtttg gtttcactg tttgaaact 
ttggcgaaa cggtatcag aaattatcc acaaagtta 
tggaacggc aaaagtgag aagaactcg gagtacgcc 
atcacagtg tctcaagac ggtgacgat atggagcag 
gatatcaca gttcttgag gaggttttg aggatggtt 
ttggaaatt ttcaattcg tgtctttcc agtcagttg 
gtcaataac ccaaatcta gtttacacg cttttgtac 
aataaacat attttcgaa ccgtttaag gaaaatgtt 
gcgtttcaa gacatactc caaaatatt gacattata 
attaaatac ttttcaagt ttgttggac gataaaacg 
caacaaaac gaagtggat gcctatcaa gttcttaac 
gttattcaa caaggtgca aagcggtgg cctaaagac 
aagttgaag aaatttccc gatttgaag ttcaaatat 
gtggaggaa gatcaacca gaggagttt ttcataccc 
tatgtttgg actttagtt agccagcaa tctatcctc 
cactggact aacgataat tcgccacta ctagcgact 
gtttgctaa cattttaat gtgtaatta cttatttat 
tatattatt gtttaaact gagttattg tttcataat 
ttatcattt gttccttga atgttagat attcatttt 
attttccag tatgtattt tgtaaaaga aacttattg 
tacaataaa cttaaagta acttg

    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