Status
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Gene information
General information
TC006517 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: 10882985..10885839
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
    		TC006517
    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
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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_01057

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 5 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (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%

    larval musculature pattern irregular - 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%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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): more than 80%
    cuticle remnants without visible segmentation, differentiation or axis - Penetrance (percentage of animals/eggs on slide): less than 30%

    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    legs partially remaining - 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%
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006517 RA
      MKSPPSLYA ICVKAAVKD CVTVCKFCK KEFRSLPDN 
VLFDFYYTM FTEKRACLL AVEFSELEV FIRMLNVKH 
KRVKLLKSF QGLINHGSN VPDELIQDF SNYLQKEPL 
RAISVGIHV GSFFNEGGW YDYSIKILT LTEDLCKEQ 
DESVEILKK CLECYHKRI YAETIYCEF KAAENTFNS 
AQKVIKQLE KLDALPNLA GLYANFSTL YFHRSEYDE 
SFAWSKKAL VLLNNKLPS RIIIEVLRQ ASRACVVKR 
RFNQAGLLI RQAVNLAQE IYERDGHPH FSDTLLDYG 
FYLLNFDSI QESVKVYER SLQIRMDVF EKNNIHLAL 
AHEDMAYAL YVNEYSSGR FYAARENAD RSIRLMERI 
LPNNHLMLA SAKRVKALI LEEIALDMR EGNNSHLQE 
KYLNEAEEL HRTALELSG KAFGEKNVQ TAKHYGNLG 
RLYQSMRQY EQAEKMHLK AIAIKEELL GSADYEVGL 
SIGHLASLY NYHMKRHHD AEKLYMRSM EINLNLFGE 
TYSGLEYDY RGLINVYSK LCDQSNVVL YTLKMRDWS 
LLRAQSKPP AHVEEILPL KEIIEKFSR MC
    CDS sequence
    • >TC006517 RA
      atgaaaagt cctccgtcg ctatacgca atttgtgtc 
aaagcagct gtcaaagat tgtgttaca gtttgtaaa 
ttttgcaaa aaagagttc agatctttg cctgataat 
gtcctcttt gatttttat tacacaatg ttcactgaa 
aagcgggcg tgccttctc gccgtcgaa ttcagtgaa 
ctggaagtc tttattcga atgcttaac gttaaacac 
aaacgcgtc aagttgctg aagagtttt caaggctta 
attaatcac ggatcgaac gttcctgac gaactaatc 
caggacttt tcaaattac ttgcaaaag gagcccttg 
cgggcgata agtgtaggc atacacgtg ggcagcttc 
ttcaacgaa gggggctgg tatgactac agcattaag 
atactgaca ctaacagag gacttgtgc aaggaacag 
gacgaaagc gtcgagatc ctgaagaaa tgcctcgag 
tgctatcac aagcgaatt tacgcggag accatttac 
tgcgagttc aaagcggcc gaaaacacg ttcaattcc 
gcgcaaaaa gtaataaaa cagttggaa aaattggac 
gctttacct aatctagct ggcctctat gcgaatttc 
tcaacgctg tactttcat cgtagcgaa tatgatgag 
tcgtttgcg tggtctaaa aaagcacta gtcttactt 
aataacaaa cttccctca agaatcatc attgaggtg 
ctgagacag gcgtcaaga gcttgcgtc gtcaaacgg 
cgcttcaat caagcgggc cttctgata agacaagcg 
gttaacttg gcgcaagaa atttacgag cgtgacggc 
cacccccat ttctcggac acgctgctt gattacggc 
ttttattta ctcaatttt gactcaatc caagagagc 
gtcaaggtg tacgaacgg tctctgcaa atcagaatg 
gacgttttc gagaaaaat aatatacac ctggctctc 
gcacacgaa gacatggcc tacgctctc tacgtcaac 
gagtacagc tcggggagg ttctatgcc gcaagggaa 
aatgcggac cgttcgatt cgcctcatg gagcgcatt 
ctccccaac aaccactta atgctggcg tcggccaag 
cgcgtaaag gcgctcatt ctcgaagaa atagcgttg 
gatatgcgc gagggcaac aactcgcat ttgcaggag 
aaatacctg aatgaggct gaagagctg caccggacg 
gcgttagaa ctgtctggc aaagccttc ggcgagaaa 
aacgtccaa acggcgaag cattacggc aacttgggg 
cgcttatac caaagtatg cgccagtac gagcaagcg 
gagaaaatg cacttgaag gcgattgcc attaaggaa 
gagttgctc ggaagcgcc gattacgag gtggggctc 
agtatcggg cacctggcc tcgctgtac aactaccac 
atgaagcgc caccacgac gccgaaaag ctgtacatg 
cgctcgatg gagataaac ctgaatttg ttcggggag 
acgtattca ggtttggag tacgattat cggggcttg 
atcaacgtt tactcgaaa ctgtgtgat cagtccaac 
gttgtttta tatactttg aaaatgcgc gactggagt 
ttgctgcgg gcgcagagc aaaccgccg gctcatgtt 
gaagaaatt ttaccgctc aaggaaatt atcgaaaag 
ttctcgcgt atgtgctga
    mRNA sequence
    • >TC006517 RA
      ctggtcaat gttatttgg agttatatc agctgcttc 
attaatgtg tgattagca aataaaaac tagttcaat 
attgtgtgc aatcgtggt aaaaatgaa aagtcctcc 
gtcgctata cgcaatttg tgtcaaagc agctgtcaa 
agattgtgt tacagtttg taaattttg caaaaaaga 
gttcagatc tttgcctga taatgtcct ctttgattt 
ttattacac aatgttcac tgaaaagcg ggcgtgcct 
tctcgccgt cgaattcag tgaactgga agtctttat 
tcgaatgct taacgttaa acacaaacg cgtcaagtt 
gctgaagag ttttcaagg cttaattaa tcacggatc 
gaacgttcc tgacgaact aatccagga cttttcaaa 
ttacttgca aaaggagcc cttgcgggc gataagtgt 
aggcataca cgtgggcag cttcttcaa cgaaggggg 
ctggtatga ctacagcat taagatact gacactaac 
agaggactt gtgcaagga acaggacga aagcgtcga 
gatcctgaa gaaatgcct cgagtgcta tcacaagcg 
aatttacgc ggagaccat ttactgcga gttcaaagc 
ggccgaaaa cacgttcaa ttccgcgca aaaagtaat 
aaaacagtt ggaaaaatt ggacgcttt acctaatct 
agctggcct ctatgcgaa tttctcaac gctgtactt 
tcatcgtag cgaatatga tgagtcgtt tgcgtggtc 
taaaaaagc actagtctt acttaataa caaacttcc 
ctcaagaat catcattga ggtgctgag acaggcgtc 
aagagcttg cgtcgtcaa acggcgctt caatcaagc 
gggccttct gataagaca agcggttaa cttggcgca 
agaaattta cgagcgtga cggccaccc ccatttctc 
ggacacgct gcttgatta cggctttta tttactcaa 
ttttgactc aatccaaga gagcgtcaa ggtgtacga 
acggtctct gcaaatcag aatggacgt tttcgagaa 
aaataatat acacctggc tctcgcaca cgaagacat 
ggcctacgc tctctacgt caacgagta cagctcggg 
gaggttcta tgccgcaag ggaaaatgc ggaccgttc 
gattcgcct catggagcg cattctccc caacaacca 
cttaatgct ggcgtcggc caagcgcgt aaaggcgct 
cattctcga agaaatagc gttggatat gcgcgaggg 
caacaactc gcatttgca ggagaaata cctgaatga 
ggctgaaga gctgcaccg gacggcgtt agaactgtc 
tggcaaagc cttcggcga gaaaaacgt ccaaacggc 
gaagcatta cggcaactt ggggcgctt ataccaaag 
tatgcgcca gtacgagca agcggagaa aatgcactt 
gaaggcgat tgccattaa ggaagagtt gctcggaag 
cgccgatta cgaggtggg gctcagtat cgggcacct 
ggcctcgct gtacaacta ccacatgaa gcgccacca 
cgacgccga aaagctgta catgcgctc gatggagat 
aaacctgaa tttgttcgg ggagacgta ttcaggttt 
ggagtacga ttatcgggg cttgatcaa cgtttactc 
gaaactgtg tgatcagtc caacgttgt tttatatac 
tttgaaaat gcgcgactg gagtttgct gcgggcgca 
gagcaaacc gccggctca tgttgaaga aattttacc 
gctcaagga aattatcga aaagttctc gcgtatgtg 
ctgaagtct agtcactag tgtaaacga aattaaaca 
atgctgcca atctgttac tattgtccc atttttttt 
attgttatg tttttattt ttgcgactc ggcagaatt 
cgctgcttt aaaaatctg tgatataac taggacatt 
cccgacgtg aatctcaca ctaaacgca tcgtggttt 
ttcagttgc attactact tttgacgtg cttttattt 
ccagtatta agttttgat cggtgtttt taatcttgg 
gacatgtta cttccgtaa gagcaaaat ataaggcta 
attgtagat ggggggcgt agccacagg cagttgaac 
acgtggatg attgttatt gggtgatat cgcacgccg 
cctccttga ttgtaaagc tatgttagt gtcgcatta 
ttatatgac ttagaatta actcatcat tgattctca 
tattaatca tatttttat tttgttatt agattgtga 
ttcatattt tttacaact aattttagg agttatatc 
cttttgtta cgcaacaat tatat

    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