Status
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Gene information
General information
TC006206 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: 5040349..5042511
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
    		TC006206
    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_04087

    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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     head partiallyremaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    posterior terminus shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen mostly not present - 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): 50% - 80%
    remarks: bad quality of preparation,
    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: 20.0% (includes death as larva, prepupa, pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006206 RA
      MRLIRLLNK LPREVRQEL HSHDIQTKQ SFIDYYFSL 
FEQHVRDFD EYEKSTLVK FSEGVVSNN LNSVRFLME 
AIYNNVVRD DFLTVFERQ FEPKTTLFC NETFSQQEA 
LHQLLNEIL VTNFKSYVL EQSAYLIKK HNNQGNYTK 
EVELSYKEF LSRSYNITK SFKKSMSEA SREVWRCDP 
RKHIRNETF VEITNFLHG FILNKANLD SRGQCRDEC 
SEYKMVLKP KNCEKNYWC KKQTTCPKI IDCQYVDSS 
MTVCSNIMA KHNRRYDYV QFADGKNFG AKKSCNGDS 
DYLETYKFW LIWSCSYCF CLCDEGPKY FSDRYINLR 
LAMSNISDN KVVTGLRFV KHNQIIHLQ VQEGKLLEH 
GTIDPDSVQ WVPPENYKR TDRKIHEGQ DYQVITWEK 
RSIELTEIM ARNGSVVTG VRFKKIGSR LELEIMITP 
FNFTTGKLR NYSDQSSIF VEAPNIHLR HRFGKKITL 
SSPDVPTRS TAPSTHYTT GKYIEFTTT DVYKDAAQT 
TVPFFDSQQ VYNKNPVPL SGVGLFHRS RRGSGGFIA 
PKIFTYDFS QHL
    CDS sequence
    • >TC006206 RA
      atgcgactt attagatta ttaaataaa ctaccacga 
gaagtccga caagaattg cattcgcac gacatccag 
accaagcaa agtttcatc gactattac ttctcactt 
tttgagcaa cacgttaga gactttgac gaatatgaa 
aaatcgact ttggttaaa ttcagtgaa ggtgtcgtt 
tcaaataat ttaaattca gttcgtttc ttaatggaa 
gcaatttac aacaatgtg gtcagagac gattttttg 
acagtgttc gagagacaa ttcgagccc aaaacgact 
cttttctgc aacgaaacc ttttcacaa caagaggcg 
ctccatcaa ctgttaaac gaaattcta gtcacaaat 
ttcaagagt tatgttctt gaacagtcg gcttacctt 
atcaaaaaa cacaacaat caaggtaac tacaccaaa 
gaggttgaa cttagctac aaagaattt ttgtcaagg 
tcttacaac atcaccaag tcttttaaa aaatccatg 
agcgaggcg tcacgagaa gtgtggaga tgtgaccct 
cggaaacac atcagaaac gaaactttt gtcgaaatt 
acgaatttt cttcacggt tttatcctc aataaagcc 
aatttagat tctcgtggc caatgtcgc gacgagtgc 
agtgagtac aaaatggtc ttaaaacca aaaaactgc 
gagaaaaat tattggtgt aaaaaacag accacttgt 
ccgaaaatt atcgactgc caatatgtt gattcgtcc 
atgactgtg tgttccaac attatggca aaacataac 
cgaaggtac gattacgta caatttgct gacggaaaa 
aattttggg gcaaaaaaa tcatgcaat ggtgactca 
gactatttg gaaacgtac aaattttgg ttgatttgg 
agttgttcc tattgcttc tgcttgtgc gacgaaggg 
ccaaaatat ttttcagac agatatata aatttacgg 
ctcgccatg tcaaacata agcgataac aaagttgtc 
accggcttg agattcgtg aaacacaac caaatcatt 
cacttgcaa gtccaagaa ggtaaactc ctcgaacat 
ggaacaatt gatccggat tcagtccaa tgggtcccg 
ccagaaaat tacaaaaga actgacaga aaaatccac 
gaaggccaa gactaccaa gtcatcact tgggaaaaa 
cgaagcatc gagttaacc gaaattatg gcaagaaac 
ggttcggtt gtaaccggt gtcagattt aagaaaatc 
ggttcgcga cttgagctc gaaatcatg ataacaccg 
tttaacttc accacagga aaactgaga aattattcc 
gatcagtca agtattttc gtagaagct ccaaatatc 
catctgaga cacagattt gggaaaaaa atcacttta 
tcatccccg gatgttccc actcgatca accgcacct 
tccactcat tacacaaca ggaaaatac attgaattt 
acaaccaca gatgtgtat aaggatgca gctcaaacc 
acggtacca tttttcgac tctcagcaa gtctacaac 
aaaaatccg gtgcccctt tcaggggtc ggtctcttt 
cacagaagt cggagagga tcagggggg tttatagcc 
ccgaaaata ttcacttac gatttcagc caacatttg 
tag
    mRNA sequence
    • >TC006206 RA
      tacgacacg aaaaagagg gaggaaaaa ttattcatg 
gcattagat cgcatcaat cttagaata aaaataatg 
gaaggccga cttcnnnnn nnnnnnnnn nnnnnnnnn 
nnnnnnnnn nnnnnnnnn nnnnnnnnn nnnnnnnnn 
nnnnnnnnn nnnnnnnnn nnnnnnnnn nnnnnnnnn 
nnnnnnnnn nnnnnnnnn ncaccgtgg tatgcgact 
tattagatt attaaataa actaccacg agaagtccg 
acaagaatt gcattcgca cgacatcca gaccaagca 
aagtttcat cgactatta cttctcact ttttgagca 
acacgttag agactttga cgaatatga aaaatcgac 
tttggttaa attcagtga aggtgtcgt ttcaaataa 
tttaaattc agttcgttt cttaatgga agcaattta 
caacaatgt ggtcagaga cgatttttt gacagtgtt 
cgagagaca attcgagcc caaaacgac tcttttctg 
caacgaaac cttttcaca acaagaggc gctccatca 
actgttaaa cgaaattct agtcacaaa tttcaagag 
ttatgttct tgaacagtc ggcttacct tatcaaaaa 
acacaacaa tcaaggtaa ctacaccaa agaggttga 
acttagcta caaagaatt tttgtcaag gtcttacaa 
catcaccaa gtcttttaa aaaatccat gagcgaggc 
gtcacgaga agtgtggag atgtgaccc tcggaaaca 
catcagaaa cgaaacttt tgtcgaaat tacgaattt 
tcttcacgg ttttatcct caataaagc caatttaga 
ttctcgtgg ccaatgtcg cgacgagtg cagtgagta 
caaaatggt cttaaaacc aaaaaactg cgagaaaaa 
ttattggtg taaaaaaca gaccacttg tccgaaaat 
tatcgactg ccaatatgt tgattcgtc catgactgt 
gtgttccaa cattatggc aaaacataa ccgaaggta 
cgattacgt acaatttgc tgacggaaa aaattttgg 
ggcaaaaaa atcatgcaa tggtgactc agactattt 
ggaaacgta caaattttg gttgatttg gagttgttc 
ctattgctt ctgcttgtg cgacgaagg gccaaaata 
tttttcaga cagatatat aaatttacg gctcgccat 
gtcaaacat aagcgataa caaagttgt caccggctt 
gagattcgt gaaacacaa ccaaatcat tcacttgca 
agtccaaga aggtaaact cctcgaaca tggaacaat 
tgatccgga ttcagtcca atgggtccc gccagaaaa 
ttacaaaag aactgacag aaaaatcca cgaaggcca 
agactacca agtcatcac ttgggaaaa acgaagcat 
cgagttaac cgaaattat ggcaagaaa cggttcggt 
tgtaaccgg tgtcagatt taagaaaat cggttcgcg 
acttgagct cgaaatcat gataacacc gtttaactt 
caccacagg aaaactgag aaattattc cgatcagtc 
aagtatttt cgtagaagc tccaaatat ccatctgag 
acacagatt tgggaaaaa aatcacttt atcatcccc 
ggatgttcc cactcgatc aaccgcacc ttccactca 
ttacacaac aggaaaata cattgaatt tacaaccac 
agatgtgta taaggatgc agctcaaac cacggtacc 
atttttcga ctctcagca agtctacaa caaaaatcc 
ggtgcccct ttcaggggt cggtctctt tcacagaag 
tcggagagg atcaggggg gtttatagc cccgaaaat 
attcactta cgatttcag ccaacattt gtagttgtt 
gtaattaaa tttttgcta aaataaagt gtgtgtttt 
taa

    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