Status
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Gene information
General information
TC001412 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.

NW_015451510.1: 9033..14223
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
    TC001412
    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
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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_03179

    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: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (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): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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): 50% - 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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
    • >TC001412 RA
      MTTKEEYEY TPVAGTEES ETTFNVTNG EVTIQSNKM 
      TSESAEPTN RKFLYVAAC VANLAGFVC GTSFGWTSP 
      EIPKMKISH EAGNPLALA LTKSEESWI GSLLPVGAT 
      LGPFIAGLT ADKIGRKNT LLAGTVPFI VAFAIAAYA 
      TNPLLFFLM RFLCGLAVG VVFTVLPMY IGEIAEDEV 
      RDSLGSFMQ LFIVVGLLF SYALGPYMS IMAFNIACV 
      VSPCVFLVV FYLFIPESP YFLIRENKD QAAQALMKL 
      RSKSEEAIQ EELEEIKAS VEETLANKA SFADIFKSK 
      GLTKALTIS VGLVSLQQL SGINIVLFY AQDIFTDAG 
      STIPADIST IIIGIVQVF ASGATPIVV EKKGKRYLL 
      LLSAVGMAV SQGALAVFF HVKSGGSDV SAISWLPVT 
      CLVVYIITY CLGFGPLPW AVMGELFPG NIKSVASTV 
      TAAGCWFLG FILTKYFSL VSDLIGQAG SFGIFAACC 
      VGAGVFVYK YLPDTSGKS LQEIQDMLS GKSSSSDA
    CDS sequence
    • >TC001412 RA
      atgaccact aaggaagaa tatgagtac acaccagtg 
      gcggggacg gaagaatcc gaaacaaca ttcaatgtt 
      acaaatggc gaagtcacc attcagtcg aacaaaatg 
      accagtgag agtgccgaa cccacaaac cgaaaattt 
      ttgtacgtt gcggcatgt gtcgcaaac ttggccggc 
      ttcgtgtgc ggcacgagc ttcggctgg acttccccc 
      gaaatcccc aagatgaaa atctcgcac gaggccggc 
      aaccccctc gccctagcc ctcaccaag agcgaggag 
      tcctggatc ggctccctc ctcccggtt ggggcgacc 
      ctcggcccc ttcatcgcc ggcctcaca gccgacaaa 
      atcgggcga aaaaacacc ctcctggcc ggaaccgtg 
      cccttcatc gtcgctttc gcaatcgcc gcttacgcc 
      accaacccc cttctattc ttcctgatg cggtttctg 
      tgcggtctg gccgtggga gtggtgttc accgtcctg 
      ccgatgtac attggggag atcgcagag gacgaagtc 
      cgggactcg ctcggctcc ttcatgcag cttttcatc 
      gtcgtgggg ctgcttttc tcgtacgcc ctggggccc 
      tacatgtcc atcatggcg ttcaacatc gcgtgcgtc 
      gtgtcaccg tgcgtgttt ttggtggtt ttctacttg 
      tttatcccg gagagtccc tattttctg attcgggag 
      aacaaggat caagcggcg caagcgctg atgaagctg 
      aggtcgaag tcggaggag gcgattcag gaggagttg 
      gaggagatt aaggccagc gttgaggaa actctagcc 
      aacaaagcc tcgttcgct gatattttc aaatcgaag 
      ggtttgacc aaagccttg acgatctcg gtcgggtta 
      gtgtccttg cagcaatta tcagggatc aatattgtc 
      ctgttttac gcccaggat attttcact gacgctgga 
      agcacgatc cctgctgac atttcgacg atcattatc 
      gggattgtc caggttttc gccagtggg gccactccg 
      atcgttgtg gaaaaaaag ggcaaaagg taccttctg 
      ctgctctcc gccgtgggc atggcggtg tctcaaggg 
      gccctagct gtgttcttc cacgtcaaa agtgggggc 
      agtgatgtt agcgccatt tcctggctc cctgttacg 
      tgtcttgtg gtctacatt atcacctat tgtcttggc 
      tttgggcct ctgccatgg gccgtgatg ggcgagctt 
      ttccccggg aacattaaa tcagtggcg tccacggtc 
      acagcagct gggtgctgg tttcttggt tttattctg 
      accaaatat ttctcgctg gtttcggat ttgattgga 
      caggcgggg tctttcggg attttcgcc gcgtgttgc 
      gtgggggct ggcgttttt gtctacaag tatttgcca 
      gatacgtca ggaaagagt ctgcaggag attcaggat 
      atgctgagt gggaagagt tcgtcgagt gatgcttga
    mRNA sequence
    • >TC001412 RA
      gaagtgaca tcctcgaaa gacaaatcc ttgtgccta 
      gtttccgcg ctcaaaatg accactaag gaagaatat 
      gagtacaca ccagtggcg gggacggaa gaatccgaa 
      acaacattc aatgttaca aatggcgaa gtcaccatt 
      cagtcgaac aaaatgacc agtgagagt gccgaaccc 
      acaaaccga aaatttttg tacgttgcg gcatgtgtc 
      gcaaacttg gccggcttc gtgtgcggc acgagcttc 
      ggctggact tcccccgaa atccccaag atgaaaatc 
      tcgcacgag gccggcaac cccctcgcc ctagccctc 
      accaagagc gaggagtcc tggatcggc tccctcctc 
      ccggttggg gcgaccctc ggccccttc atcgccggc 
      ctcacagcc gacaaaatc gggcgaaaa aacaccctc 
      ctggccgga accgtgccc ttcatcgtc gctttcgca 
      atcgccgct tacgccacc aaccccctt ctattcttc 
      ctgatgcgg tttctgtgc ggtctggcc gtgggagtg 
      gtgttcacc gtcctgccg atgtacatt ggggagatc 
      gcagaggac gaagtccgg gactcgctc ggctccttc 
      atgcagctt ttcatcgtc gtggggctg cttttctcg 
      tacgccctg gggccctac atgtccatc atggcgttc 
      aacatcgcg tgcgtcgtg tcaccgtgc gtgtttttg 
      gtggttttc tacttgttt atcccggag agtccctat 
      tttctgatt cgggagaac aaggatcaa gcggcgcaa 
      gcgctgatg aagctgagg tcgaagtcg gaggaggcg 
      attcaggag gagttggag gagattaag gccagcgtt 
      gaggaaact ctagccaac aaagcctcg ttcgctgat 
      attttcaaa tcgaagggt ttgaccaaa gccttgacg 
      atctcggtc gggttagtg tccttgcag caattatca 
      gggatcaat attgtcctg ttttacgcc caggatatt 
      ttcactgac gctggaagc acgatccct gctgacatt 
      tcgacgatc attatcggg attgtccag gttttcgcc 
      agtggggcc actccgatc gttgtggaa aaaaagggc 
      aaaaggtac cttctgctg ctctccgcc gtgggcatg 
      gcggtgtct caaggggcc ctagctgtg ttcttccac 
      gtcaaaagt gggggcagt gatgttagc gccatttcc 
      tggctccct gttacgtgt cttgtggtc tacattatc 
      acctattgt cttggcttt gggcctctg ccatgggcc 
      gtgatgggc gagcttttc cccgggaac attaaatca 
      gtggcgtcc acggtcaca gcagctggg tgctggttt 
      cttggtttt attctgacc aaatatttc tcgctggtt 
      tcggatttg attggacag gcggggtct ttcgggatt 
      ttcgccgcg tgttgcgtg ggggctggc gtttttgtc 
      tacaagtat ttgccagat acgtcagga aagagtctg 
      caggagatt caggatatg ctgagtggg aagagttcg 
      tcgagtgat gcttgaatg tagtgatag ttatttatt 
      gttttatac ttttacgtt gtttgtagt cttgtcatt 
      aatttattt aacgtttca tgttttatt atacagtat 
      tattgaact gaaatctac aagtcgtac aaatgtaca 
      aagtaatac ttaaataat taataaagt ttttacaat 
      tgg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY