Status
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Gene information
General information
TC000855 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_007417.3: 6952598..6962939
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
    		TC000855
    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
    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_00181

    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: 2 (3 dpi)
    Days post injection

    Fertility
    mature egg deposition >5 number 2nd lateral oviduct: number 1st lateral oviduct: blocked - Number of animals showing the phenotype: 1

    vitellogenic egg chamber number decreased - Number of animals showing the phenotype: 3

    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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 9 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000855 RA
      MTKNKQHKF PLMRATFAT LSRRFRNKD KLKREVRTV 
ILQKGGSGL GFNIVGGED GEGIFISFI LAGGPADLS 
GELRRGDQI LSVNGVNLR NATHEEAAQ TLKGTSSTV 
TMVVQYRPE EYNRFEAKI HDLKQQISH PVTGTLLRT 
SQKRSLYVR ALFDYDPMK DDGLPSRGL AFHYGDILH 
VTNASDDEW WQARRVLNT GDEQGMGIV PSKRRWERK 
QRARDRSVK FQGHMPNIM DKQSTLDRK KKNFSFSRK 
FPFMKSKDD KSEDGSDQE HSPSATPNS ANDNERNPS 
SFMLCYTQE DANAEGNEE NVLSYEPVQ QMAINYTRP 
VIILGPLKD RINDDLISE FPDKFGSCV PHTTRPKRE 
YEVDARDYH FVSSREQME KDIQNHLFI EAGQYNDNL 
YGTSVASVR EVADKGKHC ILDVSGNAI KRLQVAQLF 
PIAIFIKPK SVESIMEMN KRMTEEQAK KTFERSLKM 
EQEFGEYFT AVVQGDTPE DIYEQVKEV IKEQSGPTI 
WVPTKEKL
    CDS sequence
    • >TC000855 RA
      atgacgaag aacaagcag cacaagttc ccgctgatg 
cgagcaacg ttcgcaacc ctcagcaga agattcagg 
aataaagat aagctgaaa agagaagtg cgcactgtg 
atactacaa aaaggaggc tccggtttg ggttttaac 
attgtggga ggtgaagac ggagaagga atcttcata 
tcattcatt ctggctgga ggtccggcc gatttgagt 
ggtgaattg cgtcgaggc gatcaaata ctcagcgtg 
aacggcgtc aacctacga aatgccact cacgaagaa 
gccgctcaa actctcaaa ggaacgagt tcgacggtc 
acaatggtg gtgcagtac agacccgag gagtacaac 
cgcttcgag gccaaaatc catgacttg aaacagcaa 
atctcgcat cccgtcacg ggaactcta cttaggaca 
tcacagaaa cgctctctc tacgtcaga gctctgttc 
gattatgat ccgatgaaa gacgacggg ttgccgagc 
cggggactc gcttttcat tatggggat atcctacat 
gtgacgaat gccagtgat gatgagtgg tggcaggcg 
cggagggta cttaacacg ggggatgaa cagggtatg 
gggattgtt ccgtcgaag aggaggtgg gagaggaag 
caaagggcg agggatcgc tcggttaag ttccaagga 
cacatgccc aacattatg gataagcaa tcgacatta 
gataggaaa aagaaaaac ttctcgttt agtagaaag 
ttccccttc atgaaaagt aaagacgac aagtcggaa 
gacggctca gatcaagaa cactctcct tctgccact 
cctaactct gctaatgat aatgaacga aatccctca 
tcgttcatg ttatgctac acccaggag gacgccaat 
gctgaaggc aatgaggaa aatgtactc tcatacgaa 
cctgtccag cagatggca atcaattac acgaggccg 
gttattatt ttggggcct ctcaaagac cgcattaac 
gacgacctc atttccgaa ttccccgac aagttcgga 
agttgtgtc ccacatacg actaggccc aagcgggag 
tacgaagtt gacgcaagg gattatcat tttgtcagc 
tcgagggaa cagatggag aaggacata caaaatcac 
ctgttcata gaagcggga caatataat gataatttg 
tacggaacc tcggtcgcc tcagttagg gaggtggca 
gataagggc aaacactgc attttggac gtaagtggc 
aatgcaatc aagaggcta caagtcgct caactcttc 
cctattgct attttcatc aaacccaaa tcggtcgaa 
tcaattatg gaaatgaat aagagaatg acggaggaa 
caagcaaag aaaacattc gaaagatct ctcaagatg 
gagcaagag tttggggaa tatttcaca gcggtggtg 
caaggagat acgcctgaa gacatctac gagcaagtg 
aaagaagta atcaaggag cagtcgggt ccaacaatt 
tgggtgcca acgaaggaa aaactgtga
    mRNA sequence
    • >TC000855 RA
      tatgagttg ttacagaag ctatctaat aattcagtg 
gcaaaatgg tgacacgtt tcgcgtctt tgtaaaaag 
tcggtttga aataagtgt tggaaaatg acgaagaac 
aagcagcac aagttcccg ctgatgcga gcaacgttc 
gcaaccctc agcagaaga ttcaggaat aaagataag 
ctgaaaaga gaagtgcgc actgtgata ctacaaaaa 
ggaggctcc ggtttgggt tttaacatt gtgggaggt 
gaagacgga gaaggaatc ttcatatca ttcattctg 
gctggaggt ccggccgat ttgagtggt gaattgcgt 
cgaggcgat caaatactc agcgtgaac ggcgtcaac 
ctacgaaat gccactcac gaagaagcc gctcaaact 
ctcaaagga acgagttcg acggtcaca atggtggtg 
cagtacaga cccgaggag tacaaccgc ttcgaggcc 
aaaatccat gacttgaaa cagcaaatc tcgcatccc 
gtcacggga actctactt aggacatca cagaaacgc 
tctctctac gtcagagct ctgttcgat tatgatccg 
atgaaagac gacgggttg ccgagccgg ggactcgct 
tttcattat ggggatatc ctacatgtg acgaatgcc 
agtgatgat gagtggtgg caggcgcgg agggtactt 
aacacgggg gatgaacag ggtatgggg attgttccg 
tcgaagagg aggtgggag aggaagcaa agggcgagg 
gatcgctcg gttaagttc caaggacac atgcccaac 
attatggat aagcaatcg acattagat aggaaaaag 
aaaaacttc tcgtttagt agaaagttc cccttcatg 
aaaagtaaa gacgacaag tcggaagac ggctcagat 
caagaacac tctccttct gccactcct aactctgct 
aatgataat gaacgaaat ccctcatcg ttcatgtta 
tgctacacc caggaggac gccaatgct gaaggcaat 
gaggaaaat gtactctca tacgaacct gtccagcag 
atggcaatc aattacacg aggccggtt attattttg 
gggcctctc aaagaccgc attaacgac gacctcatt 
tccgaattc cccgacaag ttcggaagt tgtgtccca 
catacgact aggcccaag cgggagtac gaagttgac 
gcaagggat tatcatttt gtcagctcg agggaacag 
atggagaag gacatacaa aatcacctg ttcatagaa 
gcgggacaa tataatgat aatttgtac ggaacctcg 
gtcgcctca gttagggag gtggcagat aagggcaaa 
cactgcatt ttggacgta agtggcaat gcaatcaag 
aggctacaa gtcgctcaa ctcttccct attgctatt 
ttcatcaaa cccaaatcg gtcgaatca attatggaa 
atgaataag agaatgacg gaggaacaa gcaaagaaa 
acattcgaa agatctctc aagatggag caagagttt 
ggggaatat ttcacagcg gtggtgcaa ggagatacg 
cctgaagac atctacgag caagtgaaa gaagtaatc 
aaggagcag tcgggtcca acaatttgg gtgccaacg 
aaggaaaaa ctgtgacaa acggcccct ccagtgtgg 
acgctgcca tcgcgctca cggctgcac tgaacagtt 
ttgcgaaaa atagacaca ttctgttgt tatgtgcgg 
tgcctccta atgcgtgct tacaagacc agctcattc 
attaatcat acctttatt attgcccaa attgttgat 
aatgacaaa tacaagagt agttatgaa tttaaagta 
atcttagtg tatggtgcg gcggtgaga gaaacaccc 
gcaaagctt gtatagatg tggataacc tccgagccc 
ttatttcat tattaaaaa tgcacttgt gttacttaa 
tgaattaat ctatgatga ataagcata atagtcaaa 
tcttgaaat cgtttataa tataattag ccaattgtt 
atttgactt ttaggtagt tttatcaat gttttttgt 
agtgtacga tgtatattt aatataaag gtttccctg 
ccaataagt taaattgta tatacacaa atgatatat 
gtgtagtat ataacagaa atctgttat tgttatttg 
agacaagtt gtgacctaa cttatttga gttaataaa 
agaaatttt actaa

    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