Status
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Gene information
General information
TC002616 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_007418.3: 21452451..21467469
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
    TC002616
    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_00414

    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 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

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


    remarks: animals lost,
    Pupal morphology
    remarks: animals lost,
    Adult morphology
    remarks: animals lost, prothoracic odoriferous glands partially colour darker - Number of animals showing the phenotype: 8 (41 dpi)
    Days post injection



    Fertility
    remarks: animals lost,
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002616 RA
      MSGHLDNPA FINDDGKSN HSFTPALNS TEDLNRKNE 
      KNYVVEMKD LKKAEEATG EYEPYLHRD VEHPTTNAE 
      TLLHLLKGS LGTGILSMP LAFFHSGYL VGIICTILI 
      GGICTYCIH LIIQAEYEL CKRKKMPSL TYPATAELA 
      LLEGPKFFQ VLAPYSVHV INTFLLIYQ LGACCVYTV 
      FIAENVKHV ADEYIEKLD VKIWMLVIL LPLILINYI 
      RNLKFLAPF STVANFITI VSFGIILYY LIKADMTFE 
      GRNVAGKIA DFPLYFGTV LFALEAIGV IMPLENEMK 
      TPKAFKGGC GVLNIGMIS IVVLYVGMG LLGYIAYGS 
      DVADTITIN LSPEDVLAQ VAKIMLAIA IYITHPLQM 
      YVAIDIIWN EYLASRFEK SRYQLFFEY AVRTALVLI 
      TFALAVAIP KLDLFISLF GAFCLSALG LAFPAIIQT 
      STFWYSLTG FSGKMVIAK NCALVLFGI IGLIVGTYT 
      SLQKIVEFF NE
    CDS sequence
    • >TC002616 RA
      atgagtgga caccttgat aacccggct tttatcaac 
      gacgacggc aagagcaac cacagcttt actccggcg 
      ctcaattct acggaagac ctgaaccgg aagaatgaa 
      aaaaactac gtcgttgag atgaaggat ttgaagaaa 
      gctgaggaa gccaccggc gaatatgag ccctatttg 
      caccgagac gtcgaacat ccgaccaca aatgccgaa 
      acattgctg catctcctt aagggcagc ttgggcact 
      ggaatcctc tcaatgcct ttggccttc ttccattcc 
      ggatactta gtagggatc atttgcaca attctaata 
      ggcgggatt tgcacgtac tgcatacat ttgatcatc 
      caagcggaa tatgagctg tgcaaacgg aaaaaaatg 
      cccagttta acgtaccca gcaacggcc gaactggcc 
      ctgcttgaa ggcccaaaa ttcttccaa gttctagct 
      ccctactct gtacatgtt ataaatacg ttcttactg 
      atatatcaa ctgggggct tgttgtgtg tacacagtg 
      tttatcgcc gaaaatgtg aaacatgtc gctgatgaa 
      tatatcgaa aaattggac gtgaaaatc tggatgttg 
      gtcatcctc ctacctcta atactcatc aattacatc 
      agaaatttg aaatttctg gcccccttt tccacagtt 
      gccaacttt attaccatt gttagtttt ggaattatt 
      ttgtactac ctcattaaa gccgacatg acatttgaa 
      ggacgaaac gttgcagga aaaattgcc gattttccc 
      ctttatttt ggaaccgtg ctgtttgct ctagaagcc 
      atcggtgtg ataatgccg ctcgaaaac gaaatgaaa 
      actcccaaa gctttcaaa ggcggctgt ggagtccta 
      aatattggc atgatttcc attgtggtt ttatacgtc 
      gggatgggt ttgctgggc tatatcgcc tatgggtct 
      gatgttgca gacaccatc accattaac ttatcccca 
      gaggatgtc ctagcacag gtggctaaa ataatgtta 
      gccatagct atctacatc acgcatcct ctgcagatg 
      tacgtggct attgatatt atatggaac gaatattta 
      gcgtcaaga tttgaaaaa agccgctac cagctgttt 
      ttcgaatat gctgtgcga actgctcta gtcttaatt 
      acatttgcc ttagcggtg gccattccg aagttggat 
      ctctttata tcattgttt ggtgctttc tgtctgtca 
      gcgttaggt ttagccttc cctgcgatc atccagacg 
      agtactttt tggtactcg ctgactggg ttcagtggc 
      aaaatggtg attgccaaa aactgtgca cttgtccta 
      tttggcatt ataggactg atcgtagga acgtacaca 
      agtttacaa aaaattgtc gagtttttc aatgaataa
    mRNA sequence
    • >TC002616 RA
      tgtttattg tttgcaacg ctgatgtta acaactaca 
      gtggcggct tttattgtt atgtgttta gtttcgaaa 
      actggaggg actgcaatt caggcgaaa atagccgaa 
      tttaattaa gatcaaatt ttccatcac caacaacct 
      gaacaatga gtggacacc ttgataacc cggctttta 
      tcaacgacg acggcaaga gcaaccaca gctttactc 
      cggcgctca attctacgg aagacctga accggaaga 
      atgaaaaaa actacgtcg ttgagatga aggatttga 
      agaaagctg aggaagcca ccggcgaat atgagccct 
      atttgcacc gagacgtcg aacatccga ccacaaatg 
      ccgaaacat tgctgcatc tccttaagg gcagcttgg 
      gcactggaa tcctctcaa tgcctttgg ccttcttcc 
      attccggat acttagtag ggatcattt gcacaattc 
      taataggcg ggatttgca cgtactgca tacatttga 
      tcatccaag cggaatatg agctgtgca aacggaaaa 
      aaatgccca gtttaacgt acccagcaa cggccgaac 
      tggccctgc ttgaaggcc caaaattct tccaagttc 
      tagctccct actctgtac atgttataa atacgttct 
      tactgatat atcaactgg gggcttgtt gtgtgtaca 
      cagtgttta tcgccgaaa atgtgaaac atgtcgctg 
      atgaatata tcgaaaaat tggacgtga aaatctgga 
      tgttggtca tcctcctac ctctaatac tcatcaatt 
      acatcagaa atttgaaat ttctggccc ccttttcca 
      cagttgcca actttatta ccattgtta gttttggaa 
      ttattttgt actacctca ttaaagccg acatgacat 
      ttgaaggac gaaacgttg caggaaaaa ttgccgatt 
      ttccccttt attttggaa ccgtgctgt ttgctctag 
      aagccatcg gtgtgataa tgccgctcg aaaacgaaa 
      tgaaaactc ccaaagctt tcaaaggcg gctgtggag 
      tcctaaata ttggcatga tttccattg tggttttat 
      acgtcggga tgggtttgc tgggctata tcgcctatg 
      ggtctgatg ttgcagaca ccatcacca ttaacttat 
      ccccagagg atgtcctag cacaggtgg ctaaaataa 
      tgttagcca tagctatct acatcacgc atcctctgc 
      agatgtacg tggctattg atattatat ggaacgaat 
      atttagcgt caagatttg aaaaaagcc gctaccagc 
      tgtttttcg aatatgctg tgcgaactg ctctagtct 
      taattacat ttgccttag cggtggcca ttccgaagt 
      tggatctct ttatatcat tgtttggtg ctttctgtc 
      tgtcagcgt taggtttag ccttccctg cgatcatcc 
      agacgagta ctttttggt actcgctga ctgggttca 
      gtggcaaaa tggtgattg ccaaaaact gtgcacttg 
      tcctatttg gcattatag gactgatcg taggaacgt 
      acacaagtt tacaaaaaa ttgtcgagt ttttcaatg 
      aataagttt gccataata tgattgtgt ttagcggaa 
      actcatgat tctgaagta caagaaaga agtaagaat 
      tttgtaatg tgatataag ttcaatgct caatgtcct 
      agtacatta ggcacaatg ttatatagt aaattatta 
      ttttatatt gtgttatat tacgtgtat atacagatt 
      aaggctgtt cgactttgt aaagtgaat tgagggttc 
      attgtaagg actctacct attttctta cacgagtag 
      tgtatattg tagctgcct cttttacta ttacaacta 
      tttttattt tctcatttt gccataatg agacataca 
      actaaataa agatgctta agtaac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY