Status
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Gene information
General information
TC004608 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_007416.3: 6672833..6674858
Sequence information
Transcripts / Proteins (2) 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
    TC004608
    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 *
    {{ blurReferenceResult }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09363

    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 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
    • >TC004608 RA
      MVFCVLLAL CMISNVKST HTFRNHNVK HRDHIEENS 
      LSLSDILPQ KPKHYDKNR APKLQGQPT VVYFHVTVL 
      SLDSINEES MTYVTDIFL AQSWRDPRL RFPENMSEE 
      YRILDVEWL HNIWRPDCF FKNAKSVTF HEMTIPNHY 
      LWLYHDKTL LYMSKLTLV LSCAMKFES YPHDTQICS 
      MMIESLSHT DHDLVFIWN MTDPLVVNP TIELPQLDI 
      SNNYTTDCT IEYSTGNFT CLAIVFNLR RRLGYHLFH 
      TYIPSALIV VMSWISFWI KPEAIPARV TLGVTSLLT 
      LATQNTQSQ QSLPPVSYV KAIDVWMSS CSVFVFLSL 
      MEFAVVNNF MGPVATKAM KGYSDEDIT SQFNEYRGI 
      DEPRFSTAS QPQYDTFCH GKNIALCID QFSRFFFPF 
      SFIILNIVY WTTFL
    • >TC004608 RB
      MVFCVLLAL CMISNVKST HTFRNHNVK HRDHIEENS 
      LSLSDILPQ KPKHYDKNR APKLQGQPT VVYFHVTVL 
      SLDSINEES MTYVTDIFL AQSWRDPRL RFPENMSEE 
      YRILDVEWL HNIWRPDCF FKNAKSVTF HEMTIPNHY 
      LWLYHDKTL LYMSKLTLV LSCAMKFES YPHDTQICS 
      MMIESLSHT DHDLVFIWN MTDPLVVNP TIELPQLDI 
      SNNYTTDCT IEYSTGNFT CLAIVFNLR RRLGYHLFH 
      TYIPSALIV VMSWISFWI KPEAIPARV TLGVTSLLT 
      LATQNTQSQ QSLPPVSYV KAIDVWMSS CSVFVFLSL 
      MEFAVVNNF MGPVATKAM KGYSDEDIT SQFNEYRVR 
      ESNDLPIQP QYDTFCHGK NIALCIDQF SRFFFPFSF 
      IILNIVYWT TFL
    CDS sequence
    • >TC004608 RA
      atggtattc tgtgtttta ctggctctg tgtatgatc 
      tcaaatgta aagagcact cataccttt agaaaccac 
      aatgtcaag caccgcgac cacattgaa gaaaatagt 
      ctctcactc agtgatatt ctaccgcaa aaacccaaa 
      cattacgac aaaaataga gcccctaaa ctgcaagga 
      caaccaact gttgtctac tttcacgtc actgttctc 
      tctcttgat tcaattaat gaggaatcg atgacttat 
      gtcacggat atattccta gcacaaagt tggagagac 
      ccaaggctc agattcccg gagaatatg agcgaagag 
      tacaggatt ttagacgtg gagtggctc cacaatatt 
      tggagacca gactgtttt tttaaaaat gcaaaaagt 
      gtgaccttt cacgaaatg actatacca aaccactat 
      ttgtggctc taccacgat aaaacattg ctatacatg 
      tctaaatta actcttgta ctttcatgt gctatgaaa 
      tttgagtcc tatccacat gatactcag atttgttcc 
      atgatgatt gaaagctta tcgcacacg gatcatgac 
      ttggttttt atttggaac atgactgac cctcttgtt 
      gtgaatcca acgattgag ttgccgcaa ctggacatt 
      tctaacaat tatacaacc gattgtaca attgaatat 
      tccacaggt aatttcaca tgtttggcc attgttttc 
      aacttgaga agaaggttg ggttaccat ttgtttcac 
      acgtacatc ccttcagct ttgattgtc gtaatgtct 
      tggatatcc ttctggatt aaacccgaa gctatcccg 
      gcaagagta accctcgga gttacctct ctactaact 
      ttggcaact caaaatacc cagtctcaa cagtccctt 
      cctcccgtt tcctatgta aaagcaata gatgtgtgg 
      atgtccagt tgttcggtt tttgtgttt ttatcacta 
      atggagttt gctgtcgtg aataatttc atggggcct 
      gtggcaaca aaggccatg aaagggtat tcagatgaa 
      gatatcact tcgcaattt aatgaatat aggggaatt 
      gacgaacca cgttttagt actgccagt cagccacaa 
      tacgacact ttttgccat gggaaaaac attgctctc 
      tgtattgac cagttttcg cggtttttc ttcccattt 
      tcgtttatt attcttaat attgtgtac tggacgacg 
      tttttgtga
    • >TC004608 RB
      atggtattc tgtgtttta ctggctctg tgtatgatc 
      tcaaatgta aagagcact cataccttt agaaaccac 
      aatgtcaag caccgcgac cacattgaa gaaaatagt 
      ctctcactc agtgatatt ctaccgcaa aaacccaaa 
      cattacgac aaaaataga gcccctaaa ctgcaagga 
      caaccaact gttgtctac tttcacgtc actgttctc 
      tctcttgat tcaattaat gaggaatcg atgacttat 
      gtcacggat atattccta gcacaaagt tggagagac 
      ccaaggctc agattcccg gagaatatg agcgaagag 
      tacaggatt ttagacgtg gagtggctc cacaatatt 
      tggagacca gactgtttt tttaaaaat gcaaaaagt 
      gtgaccttt cacgaaatg actatacca aaccactat 
      ttgtggctc taccacgat aaaacattg ctatacatg 
      tctaaatta actcttgta ctttcatgt gctatgaaa 
      tttgagtcc tatccacat gatactcag atttgttcc 
      atgatgatt gaaagctta tcgcacacg gatcatgac 
      ttggttttt atttggaac atgactgac cctcttgtt 
      gtgaatcca acgattgag ttgccgcaa ctggacatt 
      tctaacaat tatacaacc gattgtaca attgaatat 
      tccacaggt aatttcaca tgtttggcc attgttttc 
      aacttgaga agaaggttg ggttaccat ttgtttcac 
      acgtacatc ccttcagct ttgattgtc gtaatgtct 
      tggatatcc ttctggatt aaacccgaa gctatcccg 
      gcaagagta accctcgga gttacctct ctactaact 
      ttggcaact caaaatacc cagtctcaa cagtccctt 
      cctcccgtt tcctatgta aaagcaata gatgtgtgg 
      atgtccagt tgttcggtt tttgtgttt ttatcacta 
      atggagttt gctgtcgtg aataatttc atggggcct 
      gtggcaaca aaggccatg aaagggtat tcagatgaa 
      gatatcact tcgcaattt aatgaatat agggtacgt 
      gaatccaat gacttgcct attcagcca caatacgac 
      actttttgc catgggaaa aacattgct ctctgtatt 
      gaccagttt tcgcggttt ttcttccca ttttcgttt 
      attattctt aatattgtg tactggacg acgtttttg 
      tga
    mRNA sequence
    • >TC004608 RA
      tagttatgt ttagaaaag aaaaatata aatgtaata 
      aatagtaga caaactatc tgtacataa tgtaaagtg 
      tttacttgt acaaagtag tattaaaaa gtgtgtata 
      tgcatatat attgatagc ttaagtata agagtagat 
      acggcgtga acatcccat ggatctcac attcaaatc 
      ttccttaaa gttactgaa ctaatttaa gacagtgca 
      ttgctacgg gttcactcc cggtgattt tttttaatt 
      tgtaactta ttttaagct tattatagt ataattaaa 
      ttagcgtaa ctgtaaagg agctagtcg ttagtgtag 
      ctaacagtg gtagaaacc cgtgtctat cacgaccat 
      taatgagat tacattaat cgtacttca ctatggtat 
      tctgtgttt tactggctc tgtgtatga tctcaaatg 
      taaagagca ctcatacct ttagaaacc acaatgtca 
      agcaccgcg accacattg aagaaaata gtctctcac 
      tcagtgata ttctaccgc aaaaaccca aacattacg 
      acaaaaata gagccccta aactgcaag gacaaccaa 
      ctgttgtct actttcacg tcactgttc tctctcttg 
      attcaatta atgaggaat cgatgactt atgtcacgg 
      atatattcc tagcacaaa gttggagag acccaaggc 
      tcagattcc cggagaata tgagcgaag agtacagga 
      ttttagacg tggagtggc tccacaata tttggagac 
      cagactgtt tttttaaaa atgcaaaaa gtgtgacct 
      ttcacgaaa tgactatac caaaccact atttgtggc 
      tctaccacg ataaaacat tgctataca tgtctaaat 
      taactcttg tactttcat gtgctatga aatttgagt 
      cctatccac atgatactc agatttgtt ccatgatga 
      ttgaaagct tatcgcaca cggatcatg acttggttt 
      ttatttgga acatgactg accctcttg ttgtgaatc 
      caacgattg agttgccgc aactggaca tttctaaca 
      attatacaa ccgattgta caattgaat attccacag 
      gtaatttca catgtttgg ccattgttt tcaacttga 
      gaagaaggt tgggttacc atttgtttc acacgtaca 
      tcccttcag ctttgattg tcgtaatgt cttggatat 
      ccttctgga ttaaacccg aagctatcc cggcaagag 
      taaccctcg gagttacct ctctactaa ctttggcaa 
      ctcaaaata cccagtctc aacagtccc ttcctcccg 
      tttcctatg taaaagcaa tagatgtgt ggatgtcca 
      gttgttcgg tttttgtgt ttttatcac taatggagt 
      ttgctgtcg tgaataatt tcatggggc ctgtggcaa 
      caaaggcca tgaaagggt attcagatg aagatatca 
      cttcgcaat ttaatgaat ataggggaa ttgacgaac 
      cacgtttta gtactgcca gtcagccac aatacgaca 
      ctttttgcc atgggaaaa acattgctc tctgtattg 
      accagtttt cgcggtttt tcttcccat tttcgttta 
      ttattctta atattgtgt actggacga cgtttttgt 
      gaagttctt gaataaaaa tcttcttat tct
    • >TC004608 RB
      tagttatgt ttagaaaag aaaaatata aatgtaata 
      aatagtaga caaactatc tgtacataa tgtaaagtg 
      tttacttgt acaaagtag tattaaaaa gtgtgtata 
      tgcatatat attgatagc ttaagtata agagtagat 
      acggcgtga acatcccat ggatctcac attcaaatc 
      ttccttaaa gttactgaa ctaatttaa gacagtgca 
      ttgctacgg gttcactcc cggtgattt tttttaatt 
      tgtaactta ttttaagct tattatagt ataattaaa 
      ttagcgtaa ctgtaaagg agctagtcg ttagtgtag 
      ctaacagtg gtagaaacc cgtgtctat cacgaccat 
      taatgagat tacattaat cgtacttca ctatggtat 
      tctgtgttt tactggctc tgtgtatga tctcaaatg 
      taaagagca ctcatacct ttagaaacc acaatgtca 
      agcaccgcg accacattg aagaaaata gtctctcac 
      tcagtgata ttctaccgc aaaaaccca aacattacg 
      acaaaaata gagccccta aactgcaag gacaaccaa 
      ctgttgtct actttcacg tcactgttc tctctcttg 
      attcaatta atgaggaat cgatgactt atgtcacgg 
      atatattcc tagcacaaa gttggagag acccaaggc 
      tcagattcc cggagaata tgagcgaag agtacagga 
      ttttagacg tggagtggc tccacaata tttggagac 
      cagactgtt tttttaaaa atgcaaaaa gtgtgacct 
      ttcacgaaa tgactatac caaaccact atttgtggc 
      tctaccacg ataaaacat tgctataca tgtctaaat 
      taactcttg tactttcat gtgctatga aatttgagt 
      cctatccac atgatactc agatttgtt ccatgatga 
      ttgaaagct tatcgcaca cggatcatg acttggttt 
      ttatttgga acatgactg accctcttg ttgtgaatc 
      caacgattg agttgccgc aactggaca tttctaaca 
      attatacaa ccgattgta caattgaat attccacag 
      gtaatttca catgtttgg ccattgttt tcaacttga 
      gaagaaggt tgggttacc atttgtttc acacgtaca 
      tcccttcag ctttgattg tcgtaatgt cttggatat 
      ccttctgga ttaaacccg aagctatcc cggcaagag 
      taaccctcg gagttacct ctctactaa ctttggcaa 
      ctcaaaata cccagtctc aacagtccc ttcctcccg 
      tttcctatg taaaagcaa tagatgtgt ggatgtcca 
      gttgttcgg tttttgtgt ttttatcac taatggagt 
      ttgctgtcg tgaataatt tcatggggc ctgtggcaa 
      caaaggcca tgaaagggt attcagatg aagatatca 
      cttcgcaat ttaatgaat atagggtac gtgaatcca 
      atgacttgc ctattcagc cacaatacg acacttttt 
      gccatggga aaaacattg ctctctgta ttgaccagt 
      tttcgcggt ttttcttcc cattttcgt ttattattc 
      ttaatattg tgtactgga cgacgtttt tgtgaagtt 
      cttgaataa aaatcttct tattct
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY