Status
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Gene information
General information
TC006630 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_007423.3: 12139371..12141684
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
    TC006630
    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_08938

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 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): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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%
    larva everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva partially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    antenna not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    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
    • >TC006630 RA
      MAILNCPLC CHETFETAA TLKNHILTI LDNLLCPTC 
      GKKFEKLAD LAQHLDDND CQGGDAPAE GQYYCQMCD 
      LHLDDIDEH LRQSHEGQE ILLEEEDAD CGEVPLDGT 
      TIFVLNPDE PDLEGDPLT GDSPQVPPL KKSATVGQV 
      DVKDRDGRP YTRKFVKID KFWMQDDAN ASEPPNTER 
      LIEISKCDE CDMYVPHLD GVYQPHECK KPSNPLEIY 
      ICEVCNTNF PTFKSLRLH RRMHEPIKA RHADTPANH 
      DEEVRPMFI CKICNKTYD KEYEAVHLE SHRPENGFN 
      CDICNRKFH TKSNLEMHI KAHSNNKKF TCSYCKKPF 
      VTYDALNEH LLNQCQKRA YACQFCGRR FARPHEKVK 
      HERIHTGEK PHVCEICGK AFRVSYCLT LHMRTHSGT 
      RPYQCTHCG KRFKSHSVY NHHLLTHSD VRAYQCPYC 
      PKAFKTGVQ LAGHKNSHT KPFTCTECN RPFASLYSV 
      RAHMESHKT NNNLKYECW MCGALYSRA FALKDHLKQ 
      QHEQEGDKG KGESGADEE LEAASSILV NEEDIILGL 
      EAAPNIEII EGEEGV
    CDS sequence
    • >TC006630 RA
      atggcaatt ttaaactgc cccctgtgc tgtcacgag 
      acattcgag acggctgcc actctcaaa aaccatatt 
      ttgaccatt ttggataat ttgctatgt cccacatgc 
      ggcaaaaaa ttcgaaaaa ttggccgat ttggcccaa 
      catttggac gacaacgac tgtcaaggg ggcgacgcc 
      ccagccgag ggacagtac tactgccaa atgtgcgac 
      ctgcatttg gacgacatc gacgaacac ttgcgacaa 
      agtcatgag ggccaggaa atacttctg gaagaagaa 
      gacgccgat tgcggggaa gtcccgctg gacggaacc 
      acgattttc gtcctaaac ccggacgag cccgacctg 
      gagggggat cccctcacc ggggattcc ccccaggtt 
      ccacctttg aaaaaatcg gcaactgtg ggccaggtg 
      gacgtaaaa gacagagac ggccgtcca tacacccga 
      aaattcgta aaaatcgac aaattctgg atgcaagac 
      gacgccaat gcatcagaa cctccgaac acagagcgc 
      ttgatcgag atcagtaaa tgcgacgaa tgcgacatg 
      tatgtcccg catttggac ggtgtttac caacctcac 
      gagtgcaaa aaaccctcc aatccattg gagatttac 
      atttgcgag gtttgcaac accaatttc ccgacgttc 
      aagtcgctc cgcctccac cggcgcatg cacgagcca 
      atcaaagcg cgccacgcg gacacgccg gccaatcac 
      gacgaggag gtgcggcca atgttcatt tgcaagata 
      tgcaacaaa acgtacgat aaagagtac gaagcggtt 
      catttggag tcgcatcgc ccggaaaac ggcttcaat 
      tgcgacatt tgcaaccgg aagttccac acgaaatct 
      aacctcgaa atgcacatc aaggcccac tcgaataac 
      aaaaaattc acctgctcc tattgcaaa aaacccttc 
      gttacgtac gacgccctc aacgaacac ttactcaac 
      cagtgtcaa aaaagggca tatgcgtgc cagttctgc 
      ggccgaagg ttcgcgagg ccgcacgag aaagtcaaa 
      cacgagcga atccacacc ggggaaaaa ccgcacgtg 
      tgtgaaatt tgcggcaag gcgtttcgg gtcagctac 
      tgcttgacc cttcacatg cgcacccat tcgggcacc 
      aggccctac cagtgcacc cattgcggg aaaaggttc 
      aagtcgcac agcgtctac aaccaccac ctgctcacg 
      cattcggac gtaagggcc taccagtgc ccttactgc 
      cccaaggcc ttcaaaacg ggggtgcaa ctcgctggc 
      cataaaaac agtcacacg aaaccgttc acttgcacc 
      gaatgtaat cggcccttt gcgtccctt tactcggta 
      agggcccac atggagtca cacaaaacc aacaataat 
      ctgaaatat gagtgctgg atgtgtggc gcgctttat 
      tcgagggcc tttgctttg aaggaccat ttgaagcaa 
      cagcatgaa caagaaggc gataagggg aagggcgag 
      tcgggggcg gatgaggag ttggaagcc gccagctcg 
      atacttgtc aacgaggag gatattatc ctggggttg 
      gaggccgcc cccaatatc gaaatcatc gagggggag 
      gagggggtt taa
    mRNA sequence
    • >TC006630 RA
      gttgtgtga ccttgacac ttagaaaaa cagctgtta 
      accactctt taggcgtca aaaacttag cttttactc 
      aattaataa taaaaaacg aagaaatga aaccacaag 
      gcccgtgag ccccaaaat aaccaagta aaaactaaa 
      cgtcaaacc gccattttg gccaacatc caacttcgc 
      gtttgtgtc aaaggaaat ggcaatttt aaactgccc 
      cctgtgctg tcacgagac attcgagac ggctgccac 
      tctcaaaaa ccatatttt gaccatttt ggataattt 
      gctatgtcc cacatgcgg caaaaaatt cgaaaaatt 
      ggccgattt ggcccaaca tttggacga caacgactg 
      tcaaggggg cgacgcccc agccgaggg acagtacta 
      ctgccaaat gtgcgacct gcatttgga cgacatcga 
      cgaacactt gcgacaaag tcatgaggg ccaggaaat 
      acttctgga agaagaaga cgccgattg cggggaagt 
      cccgctgga cggaaccac gattttcgt cctaaaccc 
      ggacgagcc cgacctgga gggggatcc cctcaccgg 
      ggattcccc ccaggttcc acctttgaa aaaatcggc 
      aactgtggg ccaggtgga cgtaaaaga cagagacgg 
      ccgtccata cacccgaaa attcgtaaa aatcgacaa 
      attctggat gcaagacga cgccaatgc atcagaacc 
      tccgaacac agagcgctt gatcgagat cagtaaatg 
      cgacgaatg cgacatgta tgtcccgca tttggacgg 
      tgtttacca acctcacga gtgcaaaaa accctccaa 
      tccattgga gatttacat ttgcgaggt ttgcaacac 
      caatttccc gacgttcaa gtcgctccg cctccaccg 
      gcgcatgca cgagccaat caaagcgcg ccacgcgga 
      cacgccggc caatcacga cgaggaggt gcggccaat 
      gttcatttg caagatatg caacaaaac gtacgataa 
      agagtacga agcggttca tttggagtc gcatcgccc 
      ggaaaacgg cttcaattg cgacatttg caaccggaa 
      gttccacac gaaatctaa cctcgaaat gcacatcaa 
      ggcccactc gaataacaa aaaattcac ctgctccta 
      ttgcaaaaa acccttcgt tacgtacga cgccctcaa 
      cgaacactt actcaacca gtgtcaaaa aagggcata 
      tgcgtgcca gttctgcgg ccgaaggtt cgcgaggcc 
      gcacgagaa agtcaaaca cgagcgaat ccacaccgg 
      ggaaaaacc gcacgtgtg tgaaatttg cggcaaggc 
      gtttcgggt cagctactg cttgaccct tcacatgcg 
      cacccattc gggcaccag gccctacca gtgcaccca 
      ttgcgggaa aaggttcaa gtcgcacag cgtctacaa 
      ccaccacct gctcacgca ttcggacgt aagggccta 
      ccagtgccc ttactgccc caaggcctt caaaacggg 
      ggtgcaact cgctggcca taaaaacag tcacacgaa 
      accgttcac ttgcaccga atgtaatcg gccctttgc 
      gtcccttta ctcggtaag ggcccacat ggagtcaca 
      caaaaccaa caataatct gaaatatga gtgctggat 
      gtgtggcgc gctttattc gagggcctt tgctttgaa 
      ggaccattt gaagcaaca gcatgaaca agaaggcga 
      taaggggaa gggcgagtc gggggcgga tgaggagtt 
      ggaagccgc cagctcgat acttgtcaa cgaggagga 
      tattatcct ggggttgga ggccgcccc caatatcga 
      aatcatcga gggggagga gggggttta atcttgttt 
      ttgtgttaa tcagtttaa taaatgttt tacagtttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY