Status
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Gene information
General information
TC001358 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_007417.3: 15021721..15023991
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
    TC001358
    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_09711

    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)

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    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: % (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
    • >TC001358 RA
      MAQTDPNVI VGPEVERFI EGSLGELLL LLLKTHCDN 
      VLQVDAATD EELPANLLL SRSIQLAKW LRSIGVKEG 
      DSISVNSEN RLEFAVVTV ATFFVGAVF APLNPEYTP 
      GELNHVLKL SKPKVIFCS PQTIQTMTK VFADHPNLT 
      HLVLFGAQK RNESYVIMH EDIIRGATG DNIDESFEA 
      TPVDPKDAI ATILMSSGT TGLPKGVMC THESMTTYV 
      DIMRVTMAQ IIENDDPSD AMMGLAPFF HSMGFMLMF 
      LNLLRGKKM VVLSRFKTK IFLDAIIKY KISRLVVPP 
      PVMLVLLKH PLTKQYDLS GIKEIRTGA APMGKDMER 
      ELKNRFKVG HVSQGYGMT ETTLGILVS PLGKTKVGS 
      VGKIVPGMM AKVIDDTGK ALGPYKEGE VCFKGPLIM 
      KGYVGDPVA TANTIDQDG WIHTGDVAY YDEDGYFFI 
      VDRIKELIK YKGYQVAPA ELEALLITH PAVADAAVI 
      GLPDERAGE LPLAFVVKK PNHETTDKE LEKFVADNV 
      SSQKQLRGG VVFIDAIPR NPSGKILRR HLKQHAITL 
      KSKL
    CDS sequence
    • >TC001358 RA
      atggcccaa acggaccct aatgtaatc gtaggccca 
      gaagttgag cgcttcatt gaaggttcc ttaggtgaa 
      ttattgcta cttttactg aaaacacac tgtgataat 
      gtcttacaa gttgatgcc gcaactgac gaagaattg 
      ccagctaat ttattacta agtcgttcg attcaactc 
      gcaaagtgg ttacgcagt attggggtt aaagaagga 
      gattcgatt tcggttaat agcgaaaat cggttagaa 
      tttgccgtt gtgacagtg gccacgttt ttcgttggc 
      gctgttttt gccccttta aaccctgaa tatactcca 
      ggcgaatta aaccacgtt ctcaaactt tcaaaaccc 
      aaagtcatt ttttgttcg cctcaaacg attcaaact 
      atgactaaa gttttcgcc gatcatcca aatctcaca 
      catttggtg ctttttggg gcgcagaaa cgtaacgag 
      agttacgtt ataatgcat gaggatatt atcagaggc 
      gccaccggt gacaacatt gacgaaagt tttgaagcc 
      acaccagtg gaccccaaa gacgccatt gccacgatt 
      ttaatgtcg tcagggacc actggtttg ccaaagggt 
      gtgatgtgc acccatgaa agcatgacc acctacgtt 
      gacataatg agggttacc atggcacaa ataatcgaa 
      aatgacgat cccagcgac gccatgatg ggtctcgcc 
      ccatttttc cactcaatg ggtttcatg ttaatgttt 
      ttgaatttg ttacgcggc aaaaaaatg gttgttttg 
      agtcgtttc aaaaccaaa attttccta gacgctatc 
      ataaagtac aaaatttcg cgacttgtt gtaccacca 
      cctgttatg ttggtacta ctaaaacac ccacttact 
      aaacaatac gacctgtct gggattaag gaaattcgg 
      acaggtgct gcccccatg gggaaagac atggaacgt 
      gaattaaaa aaccgattt aaagtaggc cacgtgtct 
      caaggttac ggaatgact gaaacgacg ttaggaatt 
      ctagtcagt cctttgggc aaaactaaa gtcggatca 
      gttgggaaa attgttcca ggaatgatg gccaaagtt 
      attgatgat actggaaag gctttaggg ccgtataaa 
      gaaggcgag gtttgtttt aaagggccc ttgattatg 
      aagggttat gttggcgat cctgttgcc acggccaat 
      acgattgat caagacggc tggatacat accggcgac 
      gttgcctac tatgatgaa gacggatat ttttttatt 
      gttgacaga attaaagaa cttattaag tacaaaggc 
      tatcaagtg gcacctgct gaacttgag gctttgtta 
      atcacacat ccggcggtt gcagatgcc gctgttatc 
      ggcctacct gatgaaagg gccggggaa ttaccgctg 
      gcctttgtt gtgaaaaaa cccaatcat gagacgact 
      gacaaagaa ttggaaaaa tttgtcgcc gacaatgta 
      tcgtctcag aaacaattg agaggcggt gttgtgttc 
      attgatgcc attccgaga aatccgtca ggaaagatt 
      ttacggaga catttgaaa cagcacgca atcacactt 
      aaatcaaag ctttaa
    mRNA sequence
    • >TC001358 RA
      atgacttta ttgacgttc acataacct attcaaaag 
      ttatgtcag aagagggat tccggtagt accagtgtt 
      ccagttcca aaaaaaaaa tggcccaaa cggacccta 
      atgtaatcg taggcccag aagttgagc gcttcattg 
      aaggttcct taggtgaat tattgctac ttttactga 
      aaacacact gtgataatg tcttacaag ttgatgccg 
      caactgacg aagaattgc cagctaatt tattactaa 
      gtcgttcga ttcaactcg caaagtggt tacgcagta 
      ttggggtta aagaaggag attcgattt cggttaata 
      gcgaaaatc ggttagaat ttgccgttg tgacagtgg 
      ccacgtttt tcgttggcg ctgtttttg cccctttaa 
      accctgaat atactccag gcgaattaa accacgttc 
      tcaaacttt caaaaccca aagtcattt tttgttcgc 
      ctcaaacga ttcaaacta tgactaaag ttttcgccg 
      atcatccaa atctcacac atttggtgc tttttgggg 
      cgcagaaac gtaacgaga gttacgtta taatgcatg 
      aggatatta tcagaggcg ccaccggtg acaacattg 
      acgaaagtt ttgaagcca caccagtgg accccaaag 
      acgccattg ccacgattt taatgtcgt cagggacca 
      ctggtttgc caaagggtg tgatgtgca cccatgaaa 
      gcatgacca cctacgttg acataatga gggttacca 
      tggcacaaa taatcgaaa atgacgatc ccagcgacg 
      ccatgatgg gtctcgccc catttttcc actcaatgg 
      gtttcatgt taatgtttt tgaatttgt tacgcggca 
      aaaaaatgg ttgttttga gtcgtttca aaaccaaaa 
      ttttcctag acgctatca taaagtaca aaatttcgc 
      gacttgttg taccaccac ctgttatgt tggtactac 
      taaaacacc cacttacta aacaatacg acctgtctg 
      ggattaagg aaattcgga caggtgctg cccccatgg 
      ggaaagaca tggaacgtg aattaaaaa accgattta 
      aagtaggcc acgtgtctc aaggttacg gaatgactg 
      aaacgacgt taggaattc tagtcagtc ctttgggca 
      aaactaaag tcggatcag ttgggaaaa ttgttccag 
      gaatgatgg ccaaagtta ttgatgata ctggaaagg 
      ctttagggc cgtataaag aaggcgagg tttgtttta 
      aagggccct tgattatga agggttatg ttggcgatc 
      ctgttgcca cggccaata cgattgatc aagacggct 
      ggatacata ccggcgacg ttgcctact atgatgaag 
      acggatatt tttttattg ttgacagaa ttaaagaac 
      ttattaagt acaaaggct atcaagtgg cacctgctg 
      aacttgagg ctttgttaa tcacacatc cggcggttg 
      cagatgccg ctgttatcg gcctacctg atgaaaggg 
      ccggggaat taccgctgg cctttgttg tgaaaaaac 
      ccaatcatg agacgactg acaaagaat tggaaaaat 
      ttgtcgccg acaatgtat cgtctcaga aacaattga 
      gaggcggtg ttgtgttca ttgatgcca ttccgagaa 
      atccgtcag gaaagattt tacggagac atttgaaac 
      agcacgcaa tcacactta aatcaaagc tttaagtaa 
      attttgttg ttatttttg ttgataatt ttatactgg 
      ttttgttgg tgtcgtgat aaataaaac gtgacaaaa 
      gta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY