Status
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Gene information
General information
TC010949 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: 1801507..1806662
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
    TC010949
    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
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    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
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    Name
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    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_04944

    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: 10.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - 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
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): 30% - 50%

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

    head shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    legs shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010949 RA
      MNRVNKIRQ EKTHVSNPE NDPVQVFCR LRPPKANEE 
      STCRLLSPT TLAFTTTDS KITRKEIHY KFRHIFTSF 
      ATQNEVFKY VAYPLLEDL LKGKNALLF TYGVTGSGK 
      THTLTGDHH NPGIMPKCI HTIFNSISA FQAPKCMIK 
      SDKMNGFEV QSQRDAKQD EMDLLKASS RTAKKNRKD 
      KTYVNDGTK IIDINESTL YSVFVSYFE IYNNKVYDL 
      LDENCGTRQ GKILREDSN KKMYVNAVV ETEVKSAEE 
      AFELFNLGQ KRKKTGNTV LNSVSSRSH SILNIRVVQ 
      LPQGCPRDL LISQLSLVD LAGSERTNR TQNTGQLLK 
      EASQINNSL MSLRTCLDN LRENQTTGA NRLVPYRSS 
      RLTLLFKNY FEGEGRIEM IVCVNPSAA DFEENLQVM 
      KFAESAQDV KVARSESKF TSSGSCPKT VTLAQIPKI 
      NLRDEALAA LEQLSDALK TRFETIKHL GSFLDEEAR 
      FRKRLVDVE QENVWGKSE LETTKVLFR KERQKFSNV 
      KAKLADAEA RAEDSQLKI REYQDKIAS LRNVVARKN 
      LKIKNTNVQ DVLMRGRQR ELKEQNVVE TPKQQTRRY 
      VGTPCPSRR RSRSAESTE V
    CDS sequence
    • >TC010949 RA
      atgaaccgc gttaacaaa attcgccag gaaaaaacc 
      cacgtatct aacccagaa aatgaccca gtgcaagtt 
      ttttgccgg cttcgcccc ccgaaagcc aacgaggaa 
      tccacgtgc aggttacta tcaccaacg actctcgca 
      ttcaccacc acggattcc aaaataact cgcaaggaa 
      atccactac aaattcagg cacattttt accagtttc 
      gccacccaa aatgaagtc ttcaaatac gtggcttat 
      ccactgttg gaggatttg ctcaaaggt aaaaacgcg 
      ttgcttttc acgtacggg gtcaccggg tccgggaaa 
      actcacact ctaaccggg gaccaccac aatcccggg 
      attatgccc aaatgtatt cacacgatt tttaattcg 
      atttcggct ttccaagcc cccaagtgt atgattaag 
      tcggataag atgaacggt tttgaggtg caatcacaa 
      cgcgatgcc aaacaagac gagatggat ttgctaaag 
      gcatcttca agaactgca aagaaaaat cggaaggac 
      aagacttac gtaaatgac ggtaccaaa ataattgat 
      attaacgag agcactttg tattcggtc tttgtgagt 
      tattttgag atttataac aataaagtt tacgatttg 
      ttggatgag aactgtgga acccgccaa ggtaagata 
      ctgcgcgaa gactcgaat aaaaaaatg tacgtcaac 
      gcagtcgtt gagactgaa gtcaagtca gccgaagag 
      gcgttcgag ttgttcaac ttgggccaa aaacgaaaa 
      aaaacgggg aacacagtt ttaaactca gtctcaagt 
      cggagtcat tccatttta aatatccga gttgtccag 
      ttaccacag ggatgtcct agggacctc ctcatctct 
      cagttgagt ttagttgac ttagccggt tccgagcgc 
      acaaaccgg acgcaaaac accggccag ttactaaag 
      gaagcaagt caaattaac aactccttg atgtcctta 
      aggacgtgt ttagacaat ttgagggaa aaccaaaca 
      acgggagcc aaccgatta gtgccatat cgcagcagc 
      cgtctgact ttacttttc aagaattac ttcgagggc 
      gaaggccgc atcgaaatg atcgtttgc gtcaaccct 
      tcagccgcc gacttcgag gaaaatctg caagtcatg 
      aagttcgca gagtccgca caggatgtt aaagtggcg 
      cgttctgaa tcgaaattt acttcttcc ggaagctgt 
      ccaaagact gtcacactt gcgcaaatt cccaaaatc 
      aacttgcgc gatgaagct ctggctgct ttggagcag 
      ctgagtgat gccttgaaa acccgattt gaaacaata 
      aaacacttg ggttcattt ctggacgag gaggctcgt 
      ttcaggaag cggctggtt gacgtggag caggagaac 
      gtttgggga aaatcggaa ctggagacc acaaaggta 
      ctgtttaga aaggaaaga cagaaattt tccaatgtg 
      aaagcgaaa ttggccgat gcggaggcc cgcgctgag 
      gactcacaa ttgaaaata cgggagtat caggacaag 
      atagcctcc ttgaggaac gtcgtagcg aggaaaaat 
      ttaaaaatc aaaaacacc aatgtccag gatgttttg 
      atgagggga cgtcaacgc gagctaaaa gaacagaat 
      gtggtggag acgcctaag caacagacg aggagatat 
      gtggggaca ccatgtcca agcaggagg aggtctaga 
      tcggcagaa tcaacagag gtctag
    mRNA sequence
    • >TC010949 RA
      aaagccata aattttatt taataattt taatactta 
      acatcagat ttgcgttac acaatgatc tgatttaat 
      aaggaacat ttatttgaa ataaacgtt tgaagtatg 
      caactgtct gtgaggaaa acttagttt taaataaga 
      gagtttgta ctttttata ttacactta gaatcacgt 
      ttcacttaa ctaggatcg attgtctca gaaccagta 
      aagatcctt ggaggagtc ctggacttg cgcttctag 
      acctgcaac aaaaaatta taattagga aacaatttt 
      tcaatggaa tctaaatac tccaaagat atttgcggg 
      cgctcttac agaaacctg taacgctct atcaatttt 
      tttcgaatt gttttggta ttgacttgt gagattcga 
      tcgtgattt tggtgctta tagtaaata atgaaccgc 
      gttaacaaa attcgccag gaaaaaacc cacgtatct 
      aacccagaa aatgaccca gtgcaagtt ttttgccgg 
      cttcgcccc ccgaaagcc aacgaggaa tccacgtgc 
      aggttacta tcaccaacg actctcgca ttcaccacc 
      acggattcc aaaataact cgcaaggaa atccactac 
      aaattcagg cacattttt accagtttc gccacccaa 
      aatgaagtc ttcaaatac gtggcttat ccactgttg 
      gaggatttg ctcaaaggt aaaaacgcg ttgcttttc 
      acgtacggg gtcaccggg tccgggaaa actcacact 
      ctaaccggg gaccaccac aatcccggg attatgccc 
      aaatgtatt cacacgatt tttaattcg atttcggct 
      ttccaagcc cccaagtgt atgattaag tcggataag 
      atgaacggt tttgaggtg caatcacaa cgcgatgcc 
      aaacaagac gagatggat ttgctaaag gcatcttca 
      agaactgca aagaaaaat cggaaggac aagacttac 
      gtaaatgac ggtaccaaa ataattgat attaacgag 
      agcactttg tattcggtc tttgtgagt tattttgag 
      atttataac aataaagtt tacgatttg ttggatgag 
      aactgtgga acccgccaa ggtaagata ctgcgcgaa 
      gactcgaat aaaaaaatg tacgtcaac gcagtcgtt 
      gagactgaa gtcaagtca gccgaagag gcgttcgag 
      ttgttcaac ttgggccaa aaacgaaaa aaaacgggg 
      aacacagtt ttaaactca gtctcaagt cggagtcat 
      tccatttta aatatccga gttgtccag ttaccacag 
      ggatgtcct agggacctc ctcatctct cagttgagt 
      ttagttgac ttagccggt tccgagcgc acaaaccgg 
      acgcaaaac accggccag ttactaaag gaagcaagt 
      caaattaac aactccttg atgtcctta aggacgtgt 
      ttagacaat ttgagggaa aaccaaaca acgggagcc 
      aaccgatta gtgccatat cgcagcagc cgtctgact 
      ttacttttc aagaattac ttcgagggc gaaggccgc 
      atcgaaatg atcgtttgc gtcaaccct tcagccgcc 
      gacttcgag gaaaatctg caagtcatg aagttcgca 
      gagtccgca caggatgtt aaagtggcg cgttctgaa 
      tcgaaattt acttcttcc ggaagctgt ccaaagact 
      gtcacactt gcgcaaatt cccaaaatc aacttgcgc 
      gatgaagct ctggctgct ttggagcag ctgagtgat 
      gccttgaaa acccgattt gaaacaata aaacacttg 
      ggttcattt ctggacgag gaggctcgt ttcaggaag 
      cggctggtt gacgtggag caggagaac gtttgggga 
      aaatcggaa ctggagacc acaaaggta ctgtttaga 
      aaggaaaga cagaaattt tccaatgtg aaagcgaaa 
      ttggccgat gcggaggcc cgcgctgag gactcacaa 
      ttgaaaata cgggagtat caggacaag atagcctcc 
      ttgaggaac gtcgtagcg aggaaaaat ttaaaaatc 
      aaaaacacc aatgtccag gatgttttg atgagggga 
      cgtcaacgc gagctaaaa gaacagaat gtggtggag 
      acgcctaag caacagacg aggagatat gtggggaca 
      ccatgtcca agcaggagg aggtctaga tcggcagaa 
      tcaacagag gtctagttt gagcacaat tcggttgaa 
      ccggcacca caaccgtca agttacaaa aataagtag 
      ctagtgata tttctaatg ggaactggg taaatattg 
      agtcatcga gtcatcgca caagaacat atctacaat 
      gggaatctc caacggctg acgcggttt aattgtata 
      ttcgatttt attgttatt attgtaagc actattaaa 
      tttgttatt tgttgtttt atctaagct gtataaaaa 
      atgttgtaa gtaataaat gttttgggg ttgc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY