Status
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Gene information
General information
TC009308 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: 182762..186559
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
    		TC009308
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06267

    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: 30.0% (includes death as pupa, adult)

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

    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%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009308 RA
      MSNKSTTLN VSGDLSLAS IDFPKFSKN VIVSEELNA 
YLRDQLQQT KRENHTLHE ELARKESQI EQNQRKIDK 
LNEKLHDFE NCCSNDFAS ASQVANSKI VELSKKLRE 
KNSEIEVYK SKCIKLENT LSELKLKQE DTVQIDKPV 
ETDLDETKK LQEKLNYTT NKWIEEKNL NLQLKNDLK 
RANKWLQQE VGDKFETLL SLNNSSNSN WRGRAQIIC 
DLQQKNQEL KEKLKQFQD NKSPHLNTE ALQVKHERK 
IEALKEENS NLKNNYTDL KRKFDTLKT RCKVLEGDQ 
SFLKSKLAS LTERHDADQ QTVVKLTSQ LQQCNHLKT 
DDLRQKDQL VKHLQQEIE SLKVELMKE KCLSENKSK 
ELLEKSDDI QLLNKRIRS SRPPSSYKN RHENLESKT 
INRLEVERL RLLELSQVQ NDRLEMERN AHLKSQHLL 
RAEKQKCAR LEASLARLE LEQSSAKIG YANKNMTPK 
RFENDIKDK LELAEENIK ALTTRLEIE SMERKRDFQ 
EFSKILKDC TCGKF
    CDS sequence
    • >TC009308 RA
      atgagcaac aaatccaca actttaaat gtttctgga 
gatttgagt cttgcttca atcgatttt ccaaaattt 
tccaaaaat gtaatagtt tccgaagaa cttaacgcc 
tatttgcgc gatcaactc cagcaaacg aaacgtgaa 
aatcatact ctacatgag gaattggcg agaaaagag 
tctcagatt gaacaaaat caaagaaaa atcgataaa 
ctaaacgaa aagcttcac gatttcgaa aattgttgc 
tctaacgac tttgcttcc gcttcgcaa gttgcaaat 
agcaaaatt gtagaactg agtaaaaaa ttaagagag 
aaaaattcg gaaattgaa gtgtacaaa tcgaaatgt 
ataaaactt gaaaacact ttatccgaa ttaaaatta 
aaacaagag gacactgtt caaatcgat aaaccagtc 
gagactgat ttagatgaa acaaaaaaa ctacaagag 
aaactcaac tacactaca aacaaatgg atcgaagaa 
aaaaattta aatttgcaa ctgaaaaac gacctcaaa 
cgtgccaat aagtggttg cagcaagaa gtcggtgat 
aagtttgaa actctcttg agcctaaat aactcatcc 
aattcgaat tggagaggc agagcgcag ataatttgc 
gacttgcaa cagaaaaat caggaactg aaagaaaag 
ctaaagcag tttcaggac aataaaagt cctcatttg 
aatactgag gcgctccaa gtcaaacac gaaagaaaa 
attgaggcg ttaaaagag gaaaactct aatctgaaa 
aataattat acggacctg aagcgaaaa tttgatact 
ctcaagact aggtgcaag gtgttggaa ggcgatcag 
agcttcctg aaatcaaaa ctagccagt ttgaccgaa 
agacatgac gccgaccaa caaactgtg gtcaaatta 
acgtcgcag ttgcagcaa tgtaaccac cttaaaaca 
gacgatttg cggcaaaag gaccaactg gtgaaacat 
ttgcaacag gagattgag tcgctcaaa gtcgagtta 
atgaaagaa aaatgtttg tctgagaac aaatcgaaa 
gaactgctg gaaaaaagc gatgatatt cagttactc 
aataagaga ataagaagt tcacggcct ccaagttcc 
tacaaaaac agacatgaa aacctggaa tctaaaact 
ataaaccgg ctcgaagtg gagcgtttg cgtcttttg 
gagttgagt caagtccaa aatgatcga cttgaaatg 
gagagaaac gctcatctt aaaagccag caccttctc 
cgtgctgaa aaacagaaa tgtgcgagg cttgaggcg 
agtttggcg agactggaa ttggaacaa agtagtgca 
aaaattggt tatgcaaat aaaaatatg actccgaaa 
cggtttgag aatgatatt aaagacaaa ctggaattg 
gctgaggaa aatatcaaa gctttgacg actagactg 
gaaatcgag agtatggaa aggaaacgg gattttcag 
gagtttagt aagattttg aaggactgt acttgtggc 
aaattttga
    mRNA sequence
    • >TC009308 RA
      attctcaaa ttttaaaag tggatgcaa gtgaaagat 
attagaacg agttatcgt attaattca atttattaa 
tgaagcata aaatacagt aatttcatt tcttctttt 
tttgttgct tctgacgac gtttttcct cttttcttt 
tttcacgcg ctgtcaatg acttgtaca gtttgtaac 
caaagaatg ctgaaaaag atgacaaac gttcagaaa 
aatgaaacc caaatacca gtaataatt gatttacca 
aaaatcaca accagtaac acaacacaa aaaatgaaa 
gcgtgagca taatagtta actctcgtt tggagaagt 
tgtcccaat ttgtcttta aaatcatcc ccgaattct 
tctttcaaa gcattggcc acatttttt atcttctcc 
gaaagttcg tcaacgtca agattattt ttttttatt 
tcattcaaa tttgccatt ttaggccac actttattg 
ccacttaac aagcaacaa ccgaattta ctttactct 
gttatctgt gattgtgta atgtgatcg agatataaa 
atttattaa ctcttatcg taggtaatt gtaattatt 
ttcttaccg aaaattaaa ccgacaacg gttatcaaa 
ccgaaaaga attgctaag tctggagca gttccaaaa 
gtgggaccg ttcattgga ggcatgaat ccaggtttt 
gcttcattg gcgcgtgcg atcaagttg tctctcagt 
ttttctttt tcttcctct gggatgcct tccatattt 
tgcaaagct tctaatagc tcttccaac gttggcatt 
ttgaaattg ccatcccct ggcgcgtta ttgactgct 
ccaggttcc attttaaga cactcacgc acttatcaa 
tttgataag gaaaatgct gttttggga ggcaataat 
aaaaataaa tgcaacgtg ttagacatg tcatcagtt 
tttattttg caaggaatg ttatcgcgg tttagtgtt 
ctacttgat acaggaacg tattacaat tttttgtgt 
tttgacatt tgttaaatg catgaccaa attatataa 
taaattaaa aaaatttat tcatcaact gtacaataa 
aatatgaag aatacaaca tgacaatgg aatgtttta 
aaattattt agggtccct gtccctact ttttcttct 
tttgttgct tttgtcgcc gtttttctt ctttccttc 
gttcacgtt cagccaagg acttgtaca atttatagc 
caaagaaaa ctgtaacaa aaattcaaa aattgacac 
ttgacgttt gacactttt tatcatcat tgcacacga 
gggttacaa attttaaaa ttattattg atgaattgg 
aagtgtacg gaaatatta attaaaatt ttacttact 
cgacaaaga tacgaaaat tataccggg caaaataaa 
aaccgagtt tgagaaacc atgttcgat aggaccgtc 
ttgcccacc tcttaaatc aaccatagt ataatatag 
taattttaa atgcaacca ataatctac acttgttgt 
ttaactaaa aaattcaat aatttgccg cttctatta 
tttattgat aacaagaac aaatctacg gttatctct 
tcccatcca agtgacatt ggaagaaac ataaaatcc 
ctaattgac gtgggaaat tcaaacaaa aaaagtaac 
tgtcaagta ttcaaaatg agcaacaaa tccacaact 
ttaaatgtt tctggagat ttgagtctt gcttcaatc 
gattttcca aaattttcc aaaaatgta atagtttcc 
gaagaactt aacgcctat ttgcgcgat caactccag 
caaacgaaa cgtgaaaat catactcta catgaggaa 
ttggcgaga aaagagtct cagattgaa caaaatcaa 
agaaaaatc gataaacta aacgaaaag cttcacgat 
ttcgaaaat tgttgctct aacgacttt gcttccgct 
tcgcaagtt gcaaatagc aaaattgta gaactgagt 
aaaaaatta agagagaaa aattcggaa attgaagtg 
tacaaatcg aaatgtata aaacttgaa aacacttta 
tccgaatta aaattaaaa caagaggac actgttcaa 
atcgataaa ccagtcgag actgattta gatgaaaca 
aaaaaacta caagagaaa ctcaactac actacaaac 
aaatggatc gaagaaaaa aatttaaat ttgcaactg 
aaaaacgac ctcaaacgt gccaataag tggttgcag 
caagaagtc ggtgataag tttgaaact ctcttgagc 
ctaaataac tcatccaat tcgaattgg agaggcaga 
gcgcagata atttgcgac ttgcaacag aaaaatcag 
gaactgaaa gaaaagcta aagcagttt caggacaat 
aaaagtcct catttgaat actgaggcg ctccaagtc 
aaacacgaa agaaaaatt gaggcgtta aaagaggaa 
aactctaat ctgaaaaat aattatacg gacctgaag 
cgaaaattt gatactctc aagactagg tgcaaggtg 
ttggaaggc gatcagagc ttcctgaaa tcaaaacta 
gccagtttg accgaaaga catgacgcc gaccaacaa 
actgtggtc aaattaacg tcgcagttg cagcaatgt 
aaccacctt aaaacagac gatttgcgg caaaaggac 
caactggtg aaacatttg caacaggag attgagtcg 
ctcaaagtc gagttaatg aaagaaaaa tgtttgtct 
gagaacaaa tcgaaagaa ctgctggaa aaaagcgat 
gatattcag ttactcaat aagagaata agaagttca 
cggcctcca agttcctac aaaaacaga catgaaaac 
ctggaatct aaaactata aaccggctc gaagtggag 
cgtttgcgt cttttggag ttgagtcaa gtccaaaat 
gatcgactt gaaatggag agaaacgct catcttaaa 
agccagcac cttctccgt gctgaaaaa cagaaatgt 
gcgaggctt gaggcgagt ttggcgaga ctggaattg 
gaacaaagt agtgcaaaa attggttat gcaaataaa 
aatatgact ccgaaacgg tttgagaat gatattaaa 
gacaaactg gaattggct gaggaaaat atcaaagct 
ttgacgact agactggaa atcgagagt atggaaagg 
aaacgggat tttcaggag tttagtaag attttgaag 
gactgtact tgtggcaaa ttttgagta aatacccac 
tgataatgt tt

    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