Status
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Gene information
General information
TC005070 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_007420.3: 7132460..7134606
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
    		TC005070
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03897

    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
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    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: 6 (19 dpi)
    Days post injection

    Adult morphology
    head orientation ventralized - Number of animals showing the phenotype: 2

    Comment: Head pronotum curled inwards.

    elytra dorsal orientation not closed - Number of animals showing the phenotype: 6


    elytra surface irregular - Number of animals showing the phenotype: 6


    thorax orientation ventralized - Number of animals showing the phenotype: 2
    Comment: Head pronotum curled inwards.

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005070 RA
      MDIGELLDY KPPQGVKRP VENENDEIE KQRKMRRIA 
RDKANRMSR AASPTPSIQ TLDQISEEE RQEILKFVE 
TEQTEGEVI DEAAIKRIV LNFEKRSLK NREMRIKFP 
DSPEKFMES ELELHEILQ EMRVLSTAP DYYPLLVKL 
QVIPSLLEL LAHDNTDVA VATVELLQE LTDVDILHE 
SEEGAEALI DALLDHQVI ALLVQNLDR LDEKVKEEA 
DGVHNSLSI IENLTELRN DICNEATKQ GLLQWLLKR 
LKVKAPFDA NKLYASELL SILLQDNEK NRTALGEMD 
GIDTLLQQL AFYKRHDPS SAEEHELME NLFNCLCSA 
LMIVSNRDR FLKGEGLQL MNLMLREKK TSRNGSLKV 
LDYAMSGPH GKDNCNKFV DILGLRTIF PLFMKTPKK 
NRKKVLSTE EHEEHVTSI IASMLRNCR GSQRQRLIS 
KFTENDHEK VDRLLELHF KYLEKVEAI DEAIEEENG 
VEDDDASYM KRLEGGLFT LQLVDYIIV EVCAAGPAS 
IKQRVMQIL NLRGASLKT IRHIMREYA GNLGDEGDK 
EWRDQEQQH ILHLVDKF
    CDS sequence
    • >TC005070 RA
      atggatatt ggtgaatta ctggactac aaaccccct 
caaggcgta aaacgccca gtcgagaat gaaaacgat 
gaaatcgaa aaacagaga aaaatgcgg cgaattgca 
cgggataaa gccaataga atgtcccgt gccgcatcc 
ccaaccccg tcaatacaa actttggac cagatatcc 
gaagaagaa agacaagaa atattaaaa tttgtggaa 
actgaacaa acagaaggc gaagtcatt gacgaagcg 
gcaatcaag cgaattgtt ctaaatttc gaaaaacgg 
agtctcaaa aacagagaa atgaggatc aagtttcca 
gactcgcct gaaaagttt atggagagc gagctcgaa 
ctacatgaa attttacaa gaaatgagg gtgttatcg 
accgcacct gactattac ccccttctt gtgaagctg 
caagtcata cccagcttg ctggaactg ttggcacat 
gataacact gatgtggca gtggcgacc gtggagctg 
ttgcaagaa ctgaccgat gtggacatc ctccacgag 
tctgaagaa ggtgccgaa gccctaatt gacgccttg 
ctcgaccac caagtgata gccctcctc gtccaaaac 
ctggaccgt ttggacgaa aaagtgaag gaggaagca 
gacggtgtc cacaactcc ctatcaata atagaaaac 
ttgaccgaa ctccgcaat gacatttgc aacgaggcc 
accaaacag ggcttgctc cagtggctc ttgaaacgg 
ttgaaagtc aaagcccct ttcgacgcc aacaaactc 
tacgccagc gaactcctc tcaatcctg ctccaagac 
aacgaaaaa aaccgaact gctttgggc gaaatggac 
ggaatcgac actttgttg caacagttg gccttctac 
aagcgccac gacccctcc agtgccgaa gaacacgag 
ctaatggag aacctgttc aactgtttg tgcagcgca 
ctgatgatc gtctcaaac cgagaccgg tttctcaaa 
ggcgagggc ttgcaactg atgaatttg atgctcaga 
gagaagaaa acctcgcgg aacggctca cttaaagtg 
ctggattac gcaatgtcg ggcccccat ggcaaagac 
aattgcaac aagttcgtg gatatttta ggcctgcgg 
accattttc cccctattt atgaaaacg ccgaagaag 
aacaggaag aaagtcttg tcgacggaa gagcacgaa 
gagcacgtc acttcgatt atcgcgtcc atgctgcgg 
aattgtcgc gggtcgcag agacaaagg ctcattagt 
aaatttacg gaaaatgat cacgagaaa gtcgacagg 
ttgcttgag ctacacttc aaatatttg gagaaggtt 
gaagccatt gatgaggcc attgaggag gaaaatgga 
gttgaggat gatgatgcg agttatatg aagcggctg 
gaaggagga ttgttcacg ttgcagttg gtggattat 
attattgtg gaagtttgt gctgcggga cccgccagt 
attaagcag cgagttatg caaatcctc aatcttagg 
ggggcttcg ttgaagacg ataaggcac attatgcgg 
gaatatgcc gggaatttg ggggacgaa ggggataag 
gagtggagg gatcaggag cagcaacac attttgcac 
ttagttgat aagttttga
    mRNA sequence
    • >TC005070 RA
      ataggttaa attcacaga aatttgaca taaacaaag 
aggttagtt attaagttt cccaaaaaa ccttaaaaa 
tggatattg gtgaattac tggactaca aaccccctc 
aaggcgtaa aacgcccag tcgagaatg aaaacgatg 
aaatcgaaa aacagagaa aaatgcggc gaattgcac 
gggataaag ccaatagaa tgtcccgtg ccgcatccc 
caaccccgt caatacaaa ctttggacc agatatccg 
aagaagaaa gacaagaaa tattaaaat ttgtggaaa 
ctgaacaaa cagaaggcg aagtcattg acgaagcgg 
caatcaagc gaattgttc taaatttcg aaaaacgga 
gtctcaaaa acagagaaa tgaggatca agtttccag 
actcgcctg aaaagttta tggagagcg agctcgaac 
tacatgaaa ttttacaag aaatgaggg tgttatcga 
ccgcacctg actattacc cccttcttg tgaagctgc 
aagtcatac ccagcttgc tggaactgt tggcacatg 
ataacactg atgtggcag tggcgaccg tggagctgt 
tgcaagaac tgaccgatg tggacatcc tccacgagt 
ctgaagaag gtgccgaag ccctaattg acgccttgc 
tcgaccacc aagtgatag ccctcctcg tccaaaacc 
tggaccgtt tggacgaaa aagtgaagg aggaagcag 
acggtgtcc acaactccc tatcaataa tagaaaact 
tgaccgaac tccgcaatg acatttgca acgaggcca 
ccaaacagg gcttgctcc agtggctct tgaaacggt 
tgaaagtca aagcccctt tcgacgcca acaaactct 
acgccagcg aactcctct caatcctgc tccaagaca 
acgaaaaaa accgaactg ctttgggcg aaatggacg 
gaatcgaca ctttgttgc aacagttgg ccttctaca 
agcgccacg acccctcca gtgccgaag aacacgagc 
taatggaga acctgttca actgtttgt gcagcgcac 
tgatgatcg tctcaaacc gagaccggt ttctcaaag 
gcgagggct tgcaactga tgaatttga tgctcagag 
agaagaaaa cctcgcgga acggctcac ttaaagtgc 
tggattacg caatgtcgg gcccccatg gcaaagaca 
attgcaaca agttcgtgg atattttag gcctgcgga 
ccattttcc ccctattta tgaaaacgc cgaagaaga 
acaggaaga aagtcttgt cgacggaag agcacgaag 
agcacgtca cttcgatta tcgcgtcca tgctgcgga 
attgtcgcg ggtcgcaga gacaaaggc tcattagta 
aatttacgg aaaatgatc acgagaaag tcgacaggt 
tgcttgagc tacacttca aatatttgg agaaggttg 
aagccattg atgaggcca ttgaggagg aaaatggag 
ttgaggatg atgatgcga gttatatga agcggctgg 
aaggaggat tgttcacgt tgcagttgg tggattata 
ttattgtgg aagtttgtg ctgcgggac ccgccagta 
ttaagcagc gagttatgc aaatcctca atcttaggg 
gggcttcgt tgaagacga taaggcaca ttatgcggg 
aatatgccg ggaatttgg gggacgaag gggataagg 
agtggaggg atcaggagc agcaacaca ttttgcact 
tagttgata agttttgat atgttattg ccattactt 
cgaataaaa attatttca tttggtatt ttcctaatt 
tctcgtcac aagggattt tgcagtgtt caaaaatta 
taatcactt tattaacag ccaacggat cttttaaaa 
acaaagaca ctacacttg actcaagta caaacacta 
aaacacttc tttctaaga ctaaaaata agtaataaa 
cgtaacaaa ataag

    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