Status
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Gene information
General information
TC006139 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: 3431645..3443090
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
    		TC006139
    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 *
    {{ blurReferenceResult }}
    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_01001

    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: 50.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 5 (9 dpi)
    Days post injection

    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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 80.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - 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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006139 RA
      MYGACLCIL ASVKILLLA PLFIVGLKA QYSSQPYDR 
NRTDNQYDP YNSQYDRQN PPYDRQNPP YDRQNPPYD 
RQNPPYDRR NPPYGQPPY DRNDRYNSP PYDRNQPYN 
QSQYGRQNQ SQYGPSYDN RDPYNRDRL DNRDQYYVG 
NRDQYNRDR DQYGSNRDR DQYGGNRDQ YGGNRDQYG 
GNRDQYGGN RDQYGGNRD QYGGNRDQY GGNRDQYGG 
NRDQYGNRD QYGGNRDQY DRDRDRYDS DGDRDRYGS 
PLFETNSDC CAEYCYAKD QNQYVQFAT KTAYQIAFS 
KSTNQQHRV PDCTPIQFW SINRHGTRY PSARTIERL 
RQLYKIQRE IVRNYQERN SYPNNGRLC PEDLDLIKG 
WRWNETVNE RNANALTYQ GVTDMKFLA RRYASKFDE 
LLREPYNEM TYSFQYTDT DRTHDSYQA YIEGLFKEK 
AYQVHANVF NNDRLIKPT RSCNAWLRE VDQNPQTFN 
EYMKFKHNR EYQQMVRDV FRRLGFRYT LNDTVLSDM 
YDMCRFEKA WNLDAMSPW CIVFNKEQL KLLEYAEDL 
KYYYKSGYG NEVNRQIGC PPVKDLYEK FERTVNNGG 
TPTGNKVTV FFTHSVTIQ TFLTAMGIA KDHQPLTAE 
NYYQQQHRK WRTSKIDPF ASNLAAVLY QCRSGERYR 
VMFFLNEEP VNYPECSVG LCNWSTVQN KLRGVVDNC 
NLDFCDRNA ATAVQYNYI IYFSSLIAM FLSVKI
    CDS sequence
    • >TC006139 RA
      atgtatggt gcatgctta tgcatactg gcctcagtc 
aagatactc ttgctggcg ccacttttc atagttggt 
ctcaaagct cagtacagc tcacaaccc tacgatcga 
aatcgtacc gacaatcag tacgatcct tataactca 
caatatgac cgtcaaaac ccgccatac gatcgacaa 
aatccgcca tacgaccgc caaaacccg ccatacgac 
cgccaaaac cctccatat gaccgacgc aacccacca 
tatggacaa cctccatat gaccgcaat gatcgctac 
aattcgccc ccatatgac cggaaccag ccatacaac 
cagtcgcag tatggccgc caaaatcaa agccagtat 
ggaccttca tacgacaat cgcgatcca tacaatcgt 
gatcgtttg gataaccgt gatcagtac tatgtagga 
aatcgtgat cagtataat cgtgatcgt gatcaatac 
ggaagtaat cgtgatcgc gatcagtat ggaggaaat 
cgtgatcag tatggaggg aaccgtgat caatatgga 
ggaaaccgt gatcaatat ggaggcaat cgtgatcag 
tatggagga aatcgcgat cagtatgga ggcaatagg 
gatcaatat gggggcaat cgggatcag tatggagga 
aacagggat cagtatgga aatcgagac cagtatgga 
ggaaatcgg gatcagtat gaccgcgat cgtgatcga 
tatgatagt gatggtgat cgtgatcgt tacggttcg 
cccttgttt gaaacaaac tctgattgt tgtgcggaa 
tattgctat gcgaaagat caaaatcaa tatgttcag 
tttgcgacc aagacggcc tatcagatt gcgttttct 
aagtcgaca aatcagcag cacagagta ccagactgt 
acaccaatt caattttgg agcatcaat agacacggt 
acgagatat cctagtgct agaaccatc gaacggttg 
agacaactg tataaaatt caacgcgaa attgtgcgc 
aactatcag gaaagaaat tcgtatccc aacaacgga 
cgactctgt cctgaagat ttagatctc atcaaaggc 
tggcgctgg aatgaaact gtcaacgaa cgcaatgcc 
aacgccttg acttaccag ggagtaaca gatatgaaa 
tttttggcg cgccgttac gcttcaaag tttgacgag 
ttgttgcga gaaccctat aacgaaatg acctacagt 
tttcaatat actgacact gatcggact cacgatagc 
taccaggct tacattgaa gggcttttc aaggaaaaa 
gcttatcaa gttcatgct aatgttttt aataatgac 
agactgatc aagcctaca cgatcatgc aacgcctgg 
ctgagagaa gtggaccaa aatccgcaa acattcaat 
gaatacatg aaatttaaa cacaaccga gagtatcag 
caaatggtc agagacgtg ttccgaaga ctaggtttc 
agatacaca ctgaatgac actgtttta tccgatatg 
tacgacatg tgccgcttt gaaaaagct tggaatttg 
gatgctatg tctccttgg tgcatagtt tttaacaaa 
gaacaacta aaacttcta gaatacgcc gaagatttg 
aaatactat tacaaaagc ggttacggc aatgaagtt 
aaccgacaa attggttgt ccacctgtg aaagatctt 
tacgaaaaa ttcgaacgt acagtcaat aacggggga 
acccccact ggaaacaag gttacagtt ttcttcact 
cattctgtg acgattcag acgttttta acggcgatg 
ggtattgca aaggaccat caaccatta actgcggaa 
aattactac cagcagcaa caccgcaag tggcgtact 
tcgaaaatt gatccgttt gcgtcaaat ttggctgca 
gttttatat caatgccgt agcggagaa cgttatcgc 
gtcatgttc ttcttgaac gaggaacca gtgaattat 
ccagaatgt tcagtcggt ctttgcaac tggagtacc 
gtccaaaat aaattgcga ggtgttgta gacaattgt 
aatttagat ttctgcgat cgtaacgct gcaactgcc 
gtccaatac aattacatc atttatttc tcaagtctc 
atcgccatg tttctaagt gttaaaatc taa
    mRNA sequence
    • >TC006139 RA
      gcggtagag aaaataagt atgtatggt gcatgctta 
tgcatactg gcctcagtc aagatactc ttgctggcg 
ccacttttc atagttggt ctcaaagct cagtacagc 
tcacaaccc tacgatcga aatcgtacc gacaatcag 
tacgatcct tataactca caatatgac cgtcaaaac 
ccgccatac gatcgacaa aatccgcca tacgaccgc 
caaaacccg ccatacgac cgccaaaac cctccatat 
gaccgacgc aacccacca tatggacaa cctccatat 
gaccgcaat gatcgctac aattcgccc ccatatgac 
cggaaccag ccatacaac cagtcgcag tatggccgc 
caaaatcaa agccagtat ggaccttca tacgacaat 
cgcgatcca tacaatcgt gatcgtttg gataaccgt 
gatcagtac tatgtagga aatcgtgat cagtataat 
cgtgatcgt gatcaatac ggaagtaat cgtgatcgc 
gatcagtat ggaggaaat cgtgatcag tatggaggg 
aaccgtgat caatatgga ggaaaccgt gatcaatat 
ggaggcaat cgtgatcag tatggagga aatcgcgat 
cagtatgga ggcaatagg gatcaatat gggggcaat 
cgggatcag tatggagga aacagggat cagtatgga 
aatcgagac cagtatgga ggaaatcgg gatcagtat 
gaccgcgat cgtgatcga tatgatagt gatggtgat 
cgtgatcgt tacggttcg cccttgttt gaaacaaac 
tctgattgt tgtgcggaa tattgctat gcgaaagat 
caaaatcaa tatgttcag tttgcgacc aagacggcc 
tatcagatt gcgttttct aagtcgaca aatcagcag 
cacagagta ccagactgt acaccaatt caattttgg 
agcatcaat agacacggt acgagatat cctagtgct 
agaaccatc gaacggttg agacaactg tataaaatt 
caacgcgaa attgtgcgc aactatcag gaaagaaat 
tcgtatccc aacaacgga cgactctgt cctgaagat 
ttagatctc atcaaaggc tggcgctgg aatgaaact 
gtcaacgaa cgcaatgcc aacgccttg acttaccag 
ggagtaaca gatatgaaa tttttggcg cgccgttac 
gcttcaaag tttgacgag ttgttgcga gaaccctat 
aacgaaatg acctacagt tttcaatat actgacact 
gatcggact cacgatagc taccaggct tacattgaa 
gggcttttc aaggaaaaa gcttatcaa gttcatgct 
aatgttttt aataatgac agactgatc aagcctaca 
cgatcatgc aacgcctgg ctgagagaa gtggaccaa 
aatccgcaa acattcaat gaatacatg aaatttaaa 
cacaaccga gagtatcag caaatggtc agagacgtg 
ttccgaaga ctaggtttc agatacaca ctgaatgac 
actgtttta tccgatatg tacgacatg tgccgcttt 
gaaaaagct tggaatttg gatgctatg tctccttgg 
tgcatagtt tttaacaaa gaacaacta aaacttcta 
gaatacgcc gaagatttg aaatactat tacaaaagc 
ggttacggc aatgaagtt aaccgacaa attggttgt 
ccacctgtg aaagatctt tacgaaaaa ttcgaacgt 
acagtcaat aacggggga acccccact ggaaacaag 
gttacagtt ttcttcact cattctgtg acgattcag 
acgttttta acggcgatg ggtattgca aaggaccat 
caaccatta actgcggaa aattactac cagcagcaa 
caccgcaag tggcgtact tcgaaaatt gatccgttt 
gcgtcaaat ttggctgca gttttatat caatgccgt 
agcggagaa cgttatcgc gtcatgttc ttcttgaac 
gaggaacca gtgaattat ccagaatgt tcagtcggt 
ctttgcaac tggagtacc gtccaaaat aaattgcga 
ggtgttgta gacaattgt aatttagat ttctgcgat 
cgtaacgct gcaactgcc gtccaatac aattacatc 
atttatttc tcaagtctc atcgccatg tttctaagt 
gttaaaatc taaatgtta agttaggtt agtacaaag 
ttactgtta cttattttg tatatttta ttgttgatg 
tcatgctgt acaaaagga taggacccg ccatttgtt 
cgtaattgg tgccagtgt gaagcaaaa atgtgtcta 
agtagtttt agaaataaa aatacagtt ttttaacag 
aa

    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