Status
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Gene information
General information
TC004127 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: 1533167..1577906
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
    TC004127
    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06566

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    larva partially dorsalnot closed - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    thorax not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    abdomen not present - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    iBeetle screen iB_03694

    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: 60.0% (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: 4 (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
    • >TC004127 RA
      MAVLIKKCS LILPGFRTT SCLTVVLLV CMETVFLCT 
      QSTCSKTFQ VHWNTSDSI FHIDNTDHI IDVNKGNAQ 
      FEYDQVNII CPVYTPGTY GDDLEKYII YNVSKEEYE 
      TCRITNPNP RIIAICDKP YKLMYFTIT FRPFTPQPG 
      GLEFLPGKD YYFISTSSK DDLHRRIGG RCSSNNMKI 
      VFKVCCAPD QSQANFTTK LTSTSTTTL GWPDIHRPM 
      VEATSSSTT QWAPRTDAP PTRKPTKKM NEYEKHPNE 
      VMKNEELTY SKGVWLSAG PPSFLVVIA CIAVIRWR
    CDS sequence
    • >TC004127 RA
      atggccgtg ttaataaag aagtgcagt ttgatcttg 
      ccggggttt agaacaacc tcctgcctg accgttgtg 
      ttgctcgtc tgcatggag accgtcttc ttgtgcacg 
      cagtccacc tgctcaaaa acattccag gttcactgg 
      aataccagc gatagcata tttcacatc gacaacact 
      gaccacatc atcgacgta aataagggc aacgcccaa 
      tttgaatac gaccaagtc aacatcatc tgtccggtg 
      tacacgcca ggaacgtac ggagatgac ttagaaaaa 
      tacatcatt tacaacgta tcgaaggag gagtacgaa 
      acctgccga ataaccaac cccaacccc cgaataata 
      gccatatgc gacaaaccg tacaaactt atgtatttc 
      acaattaca tttcgccct tttacgccc cagcccggc 
      ggcttggag ttcctcccc ggcaaagat tactacttt 
      atatcgacg tcgtcaaag gacgacctc caccgccgg 
      atcgggggc cggtgctcc tccaacaac atgaaaatc 
      gtcttcaaa gtgtgctgc gcccccgac cagagccag 
      gccaacttc acgacgaaa ttaacctcg acctcgacg 
      acgacgctg ggctggccg gacatccac cggcccatg 
      gtcgaagcg acgtcgtcg tcgaccacg caatgggcc 
      cctcggacg gacgcgccg ccgacgcgg aaacccacc 
      aagaaaatg aacgagtac gagaagcat ccgaacgaa 
      gtcatgaaa aatgaagag ttgacgtac agcaaagga 
      gtctggcta tcggcgggc ccgccgagt tttctagtt 
      gtcattgcc tgcatcgca gtcatccga tggcggtga
    mRNA sequence
    • >TC004127 RA
      agagacgga ggacggagc cggccgccg ccaccggcc 
      ctcacctgc tgatcctcg tcgattttc gtcgagaag 
      cgacgaccg gaggccgag ggccgacca actgccgcg 
      ttgccgatc agcgcacca cgccggcga ggccgagtc 
      caagagaaa tagagagta aagagtaga gagtagaac 
      gcgttgggc cgttggagg aagaaatca cgtccgcga 
      gcacttcgg cacttccac gtcgcgatt cgaacatgt 
      gccgggaca atgagagtt tctggtggc ggtcggccg 
      gtgattgtt gagaatgac gacaacccc tccatggta 
      gaagggtgg tcttggtgt tcagtgcaa gagtgcgtt 
      ttggtggcc ggcgcgcga aatggccgt gttaataaa 
      gaagtgcag tttgatctt gccggggtt tagaacaac 
      ctcctgcct gaccgttgt gttgctcgt ctgcatgga 
      gaccgtctt cttgtgcac gcagtccac ctgctcaaa 
      aacattcca ggttcactg gaataccag cgatagcat 
      atttcacat cgacaacac tgaccacat catcgacgt 
      aaataaggg caacgccca atttgaata cgaccaagt 
      caacatcat ctgtccggt gtacacgcc aggaacgta 
      cggagatga cttagaaaa atacatcat ttacaacgt 
      atcgaagga ggagtacga aacctgccg aataaccaa 
      ccccaaccc ccgaataat agccatatg cgacaaacc 
      gtacaaact tatgtattt cacaattac atttcgccc 
      ttttacgcc ccagcccgg cggcttgga gttcctccc 
      cggcaaaga ttactactt tatatcgac gtcgtcaaa 
      ggacgacct ccaccgccg gatcggggg ccggtgctc 
      ctccaacaa catgaaaat cgtcttcaa agtgtgctg 
      cgcccccga ccagagcca ggccaactt cacgacgaa 
      attaacctc gacctcgac gacgacgct gggctggcc 
      ggacatcca ccggcccat ggtcgaagc gacgtcgtc 
      gtcgaccac gcaatgggc ccctcggac ggacgcgcc 
      gccgacgcg gaaacccac caagaaaat gaacgagta 
      cgagaagca tccgaacga agtcatgaa aaatgaaga 
      gttgacgta cagcaaagg agtctggct atcggcggg 
      cccgccgag ttttctagt tgtcattgc ctgcatcgc 
      agtcatccg atggcggtg agctaaaag acaggaacg 
      ggagcgggg cctcgtctc cagctccac gttcacaca 
      tgttgacac ttatctgta aaatactgt aaattattg 
      gatgacgtg tccgcgagt gcgtgaata acggcgaca 
      ctctaaata gtttgttta taagaaact gcgtaaaag 
      ccaattttt gtagataaa aatagtgcg ttaatttaa 
      gtgatggta cgatttttc agcgcgaag ctggtgtga 
      taaaagtat taaaagact caaagagac tccttgtct 
      aattactcc tcgcaatta cgtaaaata ctgtgcaat 
      ttttatcga aaagtttcc tcgactacc gcgaggagt 
      aactagatt atttcgtac gtgtacata aaagtgata 
      ttattgtca ttgaaacgc ttcttgtag tccttaatt 
      cccaaaaat gccgactga aacacttaa aagtttggg 
      aatcgcaaa tacgacact gaaatttac cggcttacg 
      gaaggtatt atttcattc ttccactct tcgagtact 
      tacgacgta cattcccgc taattctag gctgtctct 
      acgcaatta catagttcc aagtccaaa tttgtttta 
      tccgagctt ttgggtgtg tccgtctta aaatgtatt 
      ttattatac tatgaaata ttagtgtgt gtcgtttag 
      caaagactt gtataaagt gtagagcgt acgtgctat 
      atattgtat gttcattta atggatgaa atattttgt 
      acttctctt aaaaaattg tgtaaacaa tgcagtgta 
      aaagtaaat ggttgtctg atcagaatt gtcagagct 
      ctacagtag ttcatatga aactttcgt tgtcgaaaa 
      ttgttgggg ccaaccaga aattaccaa atcaagtgc 
      gttttgtaa tccgggcgc ttgattcgc gtaatttta 
      ttattttat aatagtttc ttcacagta ttatatttc 
      atgtgcttt ttcttacgc ataagtttg tgtttccat 
      attccttgg tgtctaatt tacctcaca ttaatacga 
      tgcacctca ttattgtca tgccagtat ttattttac 
      ttataacat acatccatc aaaatttct cttatttcc 
      tctcttcgt gcgaaatca tcgatcatt cgacgtgta 
      atttttata cacacattt aaccagatg tcatgttat 
      gtagcacct caactcctt ataatccgg tgcttacga 
      aaatattaa tgtatatcg ataaactta ccgactaaa 
      ttgaaaaat gattcatcc agtataaaa tatctcttc 
      atgatgcct tgttgtatt tacatcacc gataatctc 
      aaaacgttg acagatatt ttgttaatt aacaactcg 
      ccacgtaaa tctttcgtc caataaaca attcgacgt 
      tttaaagtt atcggtgaa gatatatgg actagaagt 
      aggactgta gaggcactg agaataaac aggtacaca 
      atac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY