Status
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Gene information
General information
TC009440 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: 1194906..1197714
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
    TC009440
    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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    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.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01553

    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: 2 (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 leg musculature partially randomthinner - Penetrance (percentage of animals/eggs on slide): less than 30%

    leg musculature sometimes randomnot present - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 50.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009440 RA
      MILLLAFSL SIFAFSEAS KWENVTIAV VEYKPILDS 
      SLNEPEIVA KNAQKYIEI ITNVAKDRN LDLIVFPEE 
      TLYVHRETA VTIKLDNPC DSDTYPQFL RNLSCAARS 
      SHTYLALNL VDKVKCDQS QTNSSKNCK NSGFFYYNT 
      DVVFDRNGT IVNRYHKYN LFGEREMDK PETAEEIVI 
      ETDFGLKLG IFTCFDILF KAPAQELLK DGIDGAIYP 
      SMWYSELPF LTAMQTQEM WASRHNTTL LAAGANSPL 
      VGSGGSGVY RGAQGLVVG GIVAEGGTQ VFVYQGDKS 
      VSETQDVDE LAKKMDAFN LQIDNSLEN YRWEVVNTS 
      QRNYYNVLC AGDDDNTVC CHYSLTMSM DAIKPEMKH 
      YTYILVAYA GIRSYTGVY NGGIEVCGV IACLNSSIS 
      SCGQRFSNY DEIQWPLTF ESIAVSAKF VKSENRTQF 
      PNSLLSSIR PIDSSETYW VEKEVEVNG TVFEEKQFA 
      TNVDQKRLL TFAILGRNF DLDSPADSD DDDDSNHSS 
      GNLSAAWIL LCCSLLILC KIK
    CDS sequence
    • >TC009440 RA
      atgattctt ctccttgcc ttttctcta tcgatattt 
      gccttttcg gaggcgtca aaatgggag aacgtgacc 
      attgcagtg gtggaatac aagccgatc ctcgacagc 
      tcgttaaat gagcccgaa atagtggcc aaaaacgcg 
      caaaaatac atcgagatt ataacaaat gtggcaaaa 
      gacagaaat ttagaccta attgtgttt cccgaagag 
      acgctctat gtccatcgc gaaacagca gttaccatc 
      aaattagac aatccgtgt gattctgac acttatccc 
      caatttctg aggaacctt tcttgcgca gctcggtca 
      tcacacact tacctggcc ctaaacttg gtcgataaa 
      gtaaaatgc gatcaatca caaactaat tcaagcaag 
      aattgtaaa aattctggc tttttctac tataatact 
      gacgttgtt tttgaccgg aacggcact attgttaat 
      cgttaccac aaatataat ctttttggg gaacgggaa 
      atggacaag cctgagacg gccgaagaa atcgtgatt 
      gaaaccgat ttcgggctc aaacttggc attttcacc 
      tgtttcgat attttgttt aaagcacca gcccaggag 
      ttgctcaag gatgggatc gatggggcg atttacccc 
      agcatgtgg tattcggag ctacccttc ttaactgct 
      atgcagact caggaaatg tgggcaagt cgccacaac 
      accactctg ttggctgcc ggtgccaac agccctctt 
      gttggaagt ggaggaagt ggggtttac cgtggagct 
      caaggttta gtggtgggt ggaattgtg gcagagggt 
      ggtactcaa gttttcgtg taccaaggt gataaaagc 
      gtttcggaa acgcaagac gtggacgaa ttggccaaa 
      aaaatggac gcgtttaac ttacaaata gataacagt 
      ttagaaaat tacagatgg gaggtggtg aacacctcg 
      caacggaac tactacaac gttctttgt gcgggtgat 
      gacgacaat acagtttgt tgccactac tccctcaca 
      atgtccatg gacgcaatt aaaccagaa atgaaacat 
      tacacttat attttagta gcgtatgct gggattcgt 
      tcgtataca ggagtttac aatggtggt atcgaagtt 
      tgcggtgtt atcgcttgt ttgaactcg tctatatcg 
      tcctgtggt caaagattt tcgaattat gacgaaatt 
      caatggcct ttgacgttt gaaagtatc gcagttagt 
      gcgaaattt gtaaaaagt gagaatagg acgcagttt 
      cccaactca cttttgagt tccattcga ccgattgat 
      tcaagtgag acgtactgg gttgaaaag gaagtggaa 
      gtgaatgga actgttttt gaggagaag caatttgca 
      acaaatgtg gatcagaaa aggctgttg acgtttgca 
      attcttgga aggaatttt gatttggat tcacctgct 
      gatagtgac gatgacgat gattctaat cactcaagt 
      gggaactta tcagcggcg tggattcta ttgtgttgc 
      tcgttatta attttatgt aaaataaaa taa
    mRNA sequence
    • >TC009440 RA
      catgtcgca tcgcccgcc aactgtttt aatccccta 
      ccgagaacc accgccgcc ctgccgcca caccacgcc 
      gcccccacc gccaccaaa gcgacttct ctgattaaa 
      ctttacaaa atggacgct ggcctaaac ccaactatg 
      actaaacac taatcacta tctaatcac tcaatcatc 
      aactgaagc acctactta atacaaaca cttttgaaa 
      aatcaatca cagtcgtaa tgattcttc tccttgcct 
      tttctctat cgatatttg ccttttcgg aggcgtcaa 
      aatgggaga acgtgacca ttgcagtgg tggaataca 
      agccgatcc tcgacagct cgttaaatg agcccgaaa 
      tagtggcca aaaacgcgc aaaaataca tcgagatta 
      taacaaatg tggcaaaag acagaaatt tagacctaa 
      ttgtgtttc ccgaagaga cgctctatg tccatcgcg 
      aaacagcag ttaccatca aattagaca atccgtgtg 
      attctgaca cttatcccc aatttctga ggaaccttt 
      cttgcgcag ctcggtcat cacacactt acctggccc 
      taaacttgg tcgataaag taaaatgcg atcaatcac 
      aaactaatt caagcaaga attgtaaaa attctggct 
      ttttctact ataatactg acgttgttt ttgaccgga 
      acggcacta ttgttaatc gttaccaca aatataatc 
      tttttgggg aacgggaaa tggacaagc ctgagacgg 
      ccgaagaaa tcgtgattg aaaccgatt tcgggctca 
      aacttggca ttttcacct gtttcgata ttttgttta 
      aagcaccag cccaggagt tgctcaagg atgggatcg 
      atggggcga tttacccca gcatgtggt attcggagc 
      tacccttct taactgcta tgcagactc aggaaatgt 
      gggcaagtc gccacaaca ccactctgt tggctgccg 
      gtgccaaca gccctcttg ttggaagtg gaggaagtg 
      gggtttacc gtggagctc aaggtttag tggtgggtg 
      gaattgtgg cagagggtg gtactcaag ttttcgtgt 
      accaaggtg ataaaagcg tttcggaaa cgcaagacg 
      tggacgaat tggccaaaa aaatggacg cgtttaact 
      tacaaatag ataacagtt tagaaaatt acagatggg 
      aggtggtga acacctcgc aacggaact actacaacg 
      ttctttgtg cgggtgatg acgacaata cagtttgtt 
      gccactact ccctcacaa tgtccatgg acgcaatta 
      aaccagaaa tgaaacatt acacttata ttttagtag 
      cgtatgctg ggattcgtt cgtatacag gagtttaca 
      atggtggta tcgaagttt gcggtgtta tcgcttgtt 
      tgaactcgt ctatatcgt cctgtggtc aaagatttt 
      cgaattatg acgaaattc aatggcctt tgacgtttg 
      aaagtatcg cagttagtg cgaaatttg taaaaagtg 
      agaatagga cgcagtttc ccaactcac ttttgagtt 
      ccattcgac cgattgatt caagtgaga cgtactggg 
      ttgaaaagg aagtggaag tgaatggaa ctgtttttg 
      aggagaagc aatttgcaa caaatgtgg atcagaaaa 
      ggctgttga cgtttgcaa ttcttggaa ggaattttg 
      atttggatt cacctgctg atagtgacg atgacgatg 
      attctaatc actcaagtg ggaacttat cagcggcgt 
      ggattctat tgtgttgct cgttattaa ttttatgta 
      aaataaaat aaaatactt gagacgaga ttgttgtgt 
      taattgaat tcgattaat taaaaaata aaacactgc 
      ttcaaca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY