Status
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Gene information
General information
TC007397 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_007419.2: 5063429..5067161
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
    TC007397
    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_09898

    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: 20.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (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): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): more than 80%
    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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007397 RA
      MLRSLVPAV ITLLLIFSA VKCDEVDDS DEATVEVEP 
      EESHIDIPY ESPSPLDPK KVYFAEHFD DPDQFAKRW 
      IKSQAKKEG ISEDIAKYD GEWQLEPTQ KDSLVGDKG 
      LVLKSKAKH AAIASSLLK PFIFDTKPL IVQYEVIFQ 
      DGQECGGAY LKLLTQDSA SKNLNNFHD KTPYSIMFG 
      PDKCGNDHK LHFIFKHRN PLNGSVEEK HCKKPKDRI 
      EEVFSDKLP HLFTLVLHP DNTFEILID NKVVNSGSL 
      LEDFTPAVN PPKEIDDPN DKKPEDWDE REKIPDPDA 
      VKPDDWDED APAQIVDES AVKPEGWLD NEPSHVFDP 
      DAKKPEDWD SEMDGEWEP PLIDNPACK DAVGCGPWE 
      PPLINNPDY KGKWRAPLI DNPNYKGKW RPRRIPNPE 
      FFEDKHPFK MQTVTAVGF ELWSMSKDI FFDNIIITD 
      DITVANHWA DATFEKKKQ KIAKDSESV IQKLATLTN 
      DYPWLWGVY IIVLGIPVV FVLYLCCKP GSSASQIQE 
      KEELRQAAQ HKKTDETTE DVVEEEGKE EEEDEVEAE 
      NAEDDDREK NSGPDSDEE EESEEKTEE QSSKGAGDG 
      ARKRKVRKE
    CDS sequence
    • >TC007397 RA
      atgcttaga agtctcgtt ccggcagta atcacgtta 
      ttgttgata ttttcggcg gtaaaatgt gacgaagtg 
      gacgattct gacgaggct actgtggaa gtagaaccg 
      gaagaatca cacattgat atcccctac gaaagtccg 
      agccccctt gacccgaaa aaggtctat ttcgccgag 
      catttcgac gatccagac cagtttgcg aaacgttgg 
      ataaaatcc caagcgaag aaagaaggg atttccgaa 
      gacatcgca aaatacgac ggtgaatgg caacttgaa 
      ccaacccaa aaagacagt ctagtgggc gacaaaggt 
      ttagtgctt aaatcaaag gctaaacac gctgctatt 
      gcctcctct ctcctaaaa ccgtttatt tttgatact 
      aaaccatta atcgtgcaa tatgaagta atattccaa 
      gacggccaa gaatgtggc ggagcctac ttgaagctg 
      ctcacccag gactccgcc agtaaaaac ttgaacaac 
      ttccacgat aaaaccccc tactcgatc atgttcggc 
      cccgacaag tgcggtaac gaccacaag ctccacttt 
      atcttcaag caccgcaac cctctcaac gggagcgtc 
      gaggaaaag cattgcaaa aaacccaaa gaccgcatt 
      gaggaagtc ttctccgac aaactcccc cacttgttc 
      acccttgtc ctgcaccct gacaacacc ttcgagatc 
      ctaatcgac aacaaagtg gtcaattcg ggaagtttg 
      cttgaggat ttcaccccg gcagtgaat cctccgaaa 
      gaaattgac gatcctaat gacaagaaa cctgaggat 
      tgggatgaa agggagaaa atccctgac ccagatgcc 
      gtgaaacct gacgattgg gatgaggat gcgccggct 
      cagattgtt gatgaatca gcggtgaaa ccggaaggt 
      tggctggat aatgaaccg tcgcatgtt ttcgatcct 
      gatgcaaag aaaccagaa gattgggat tcggaaatg 
      gacggggag tgggaacca ccgcttatt gataatccc 
      gcttgtaag gatgctgtc gggtgtggg ccttgggag 
      cccccactt atcaataat cccgattat aaggggaag 
      tggagggcg ccgcttatc gataatcct aattataag 
      gggaagtgg aggcccagg aggatcccc aatcccgag 
      ttcttcgaa gataagcat ccctttaaa atgcagact 
      gttaccgct gttggattt gagttatgg tcaatgtca 
      aaggacatt ttcttcgac aatattatt attaccgac 
      gatattacc gttgcgaac cattgggca gacgccact 
      tttgaaaaa aagaagcaa aagatcgcc aaggattcg 
      gaaagcgta attcaaaaa ttagctacc ttgaccaat 
      gattaccct tggctttgg ggagtatac attatcgta 
      ctaggcatc cctgttgtt tttgtatta tacctttgc 
      tgcaagcct ggatcctct gctagtcaa attcaggag 
      aaagaggag cttcgacaa gcagcgcaa cataaaaag 
      actgacgaa acgactgaa gatgttgta gaagaagaa 
      ggtaaagaa gaagaagaa gatgaagta gaagctgaa 
      aatgcagaa gacgacgat agagaaaag aattcaggg 
      cctgattcc gacgaagaa gaggaatca gaggaaaaa 
      acagaggaa cagtcatcc aaaggtgca ggtgacggc 
      gcgaggaaa cgaaaagtt cgtaaggag tga
    mRNA sequence
    • >TC007397 RA
      ttggtcggc gaatttgtg tttattctc ttcataaat 
      gcggtgtat tacgtggtg ttcaagaac tacaataaa 
      aataatctg ataataaat gaaatacag cctaagtaa 
      acaccaatt tgagttaag actgtggtg ctgaagcta 
      gtgttgtaa gagtgctgt gtaaaacta cttccggat 
      tttgaggtt aggacaata tatgatcac aaaatgctt 
      agaagtctc gttccggca gtaatcacg ttattgttg 
      atattttcg gcggtaaaa tgtgacgaa gtggacgat 
      tctgacgag gctactgtg gaagtagaa ccggaagaa 
      tcacacatt gatatcccc tacgaaagt ccgagcccc 
      cttgacccg aaaaaggtc tatttcgcc gagcatttc 
      gacgatcca gaccagttt gcgaaacgt tggataaaa 
      tcccaagcg aagaaagaa gggatttcc gaagacatc 
      gcaaaatac gacggtgaa tggcaactt gaaccaacc 
      caaaaagac agtctagtg ggcgacaaa ggtttagtg 
      cttaaatca aaggctaaa cacgctgct attgcctcc 
      tctctccta aaaccgttt atttttgat actaaacca 
      ttaatcgtg caatatgaa gtaatattc caagacggc 
      caagaatgt ggcggagcc tacttgaag ctgctcacc 
      caggactcc gccagtaaa aacttgaac aacttccac 
      gataaaacc ccctactcg atcatgttc ggccccgac 
      aagtgcggt aacgaccac aagctccac tttatcttc 
      aagcaccgc aaccctctc aacgggagc gtcgaggaa 
      aagcattgc aaaaaaccc aaagaccgc attgaggaa 
      gtcttctcc gacaaactc ccccacttg ttcaccctt 
      gtcctgcac cctgacaac accttcgag atcctaatc 
      gacaacaaa gtggtcaat tcgggaagt ttgcttgag 
      gatttcacc ccggcagtg aatcctccg aaagaaatt 
      gacgatcct aatgacaag aaacctgag gattgggat 
      gaaagggag aaaatccct gacccagat gccgtgaaa 
      cctgacgat tgggatgag gatgcgccg gctcagatt 
      gttgatgaa tcagcggtg aaaccggaa ggttggctg 
      gataatgaa ccgtcgcat gttttcgat cctgatgca 
      aagaaacca gaagattgg gattcggaa atggacggg 
      gagtgggaa ccaccgctt attgataat cccgcttgt 
      aaggatgct gtcgggtgt gggccttgg gagccccca 
      cttatcaat aatcccgat tataagggg aagtggagg 
      gcgccgctt atcgataat cctaattat aaggggaag 
      tggaggccc aggaggatc cccaatccc gagttcttc 
      gaagataag catcccttt aaaatgcag actgttacc 
      gctgttgga tttgagtta tggtcaatg tcaaaggac 
      attttcttc gacaatatt attattacc gacgatatt 
      accgttgcg aaccattgg gcagacgcc acttttgaa 
      aaaaagaag caaaagatc gccaaggat tcggaaagc 
      gtaattcaa aaattagct accttgacc aatgattac 
      ccttggctt tggggagta tacattatc gtactaggc 
      atccctgtt gtttttgta ttatacctt tgctgcaag 
      cctggatcc tctgctagt caaattcag gagaaagag 
      gagcttcga caagcagcg caacataaa aagactgac 
      gaaacgact gaagatgtt gtagaagaa gaaggtaaa 
      gaagaagaa gaagatgaa gtagaagct gaaaatgca 
      gaagacgac gatagagaa aagaattca gggcctgat 
      tccgacgaa gaagaggaa tcagaggaa aaaacagag 
      gaacagtca tccaaaggt gcaggtgac ggcgcgagg 
      aaacgaaaa gttcgtaag gagtgatag taatttttg 
      tataacttg caccagcac tgttttcat catgcaatc 
      ctgcagttg tatttattt acgattgtt tgttttttt 
      gctgtacat tattcgttc catttttcc ttaggaaat 
      ttgttcttt ttgaaagaa tagtataat tgtagttgt 
      tacgttttc gaataaagt atttgacag cggttcatt 
      ttactgtat ttgtaaata atcaaacgg agggcttaa 
      gggaaaggt attaagccg tttgtatat ttgaggatt 
      atttattac agaaaataa aaaacatgg aactatttt 
      ttggtaatt tgtaccatt tcaccggca gctcttcag 
      tttcccaga ccaaattcg cccgtacta gtattatgt 
      cattgcatg atttgcatc agcgatttt tctatatta 
      tatttataa tgtcctgtg attatgtaa tagttcaga 
      ggaaaataa attacttaa gtttat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY