Status
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Gene information
General information
TC013993 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_007420.3: 3704990..3722945
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
    TC013993
    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
    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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02234

    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)

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


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva partially potentiallyeverted (inside-out) - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: Abdomen and thorax probably not deleted but reduced to a string of cuticle. Unclear whether these remains are inside out.
    head shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax circumference decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    abdomen shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen circumference decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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
    • >TC013993 RA
      MGEDIRPLL GVPKIHKVL RKLRHKHHC AYKASTLKK 
      CVVFVILLS IILIIIYSQ YIGHSPSYL TGLIQRSNR 
      PEPNIRCGT VNGPRIPQN HDHKTEARL RSYPKVLVF 
      VETIYSKLG RDIAELLVH TRIKYKVEV AGKSLPVLT 
      NLDKGRYGV IVFENFNKY LQMDKWNRE LLDKYCREY 
      YVGMIGFIT PEEETFVGS QLKGFPLFI HTNLKLKDA 
      ALNAASQIL RLTRAGETA WGDLPGNDW TVFQANHST 
      YEPLEWAHR NDDYQPTES NVRTPLPTV IQDHGLFDN 
      IQRVIFGSG LKFWLHRLL FLDSLSYLS HGQLSLSLD 
      RRLLVDIDD IFVGEVGTR LRPEDVKAL IATQTRIQA 
      MIPGFKFNL GFSGKYIYH GNSEEDKGD DLILENVDK 
      FMWFSHMWN HQQPHLYDN LTVLMEDMV LNKNFAKEK 
      GIPVDSGYS VAPHHSGVY PVHELLYTA WKKVWNIRV 
      TSTEEYPHL RPARLRRGF IHRNIMVLP RQTCGLFTH 
      TMLIEKYPG GREKLDESI QGGELFQTI VYNPINIFM 
      THMSNYGND RLGLYTFES VIKFIQCWT NIKLSSAPP 
      LQLAESYFK LYPGESDPV WGNPCDDQR HQKIWSKNK 
      SCDSLPKFL VIGPQKTGT TALYTFLSL HPAIASNLP 
      SPDTFEEIQ FFNAHNYLR GLDWYMNFF PVDSNSSHY 
      YFEKSATYF DGELVPKRV HALLPRAKL VTILISPAK 
      RAYSWYQHT KAHGDIIAN NYSFHQVIT ASDTAPKPL 
      RDLRNRCLN PGKYAQHLE RWLTFFQLQ ALHIIDGDE 
      LKSNPVEVM NEMQKFLKI TPFFNYTEH LRFDPKKGF 
      YCQVVSGDH TKCLGRSKG RQYPPMEEK SLKLLQRYY 
      LSHNTALVK LMKRIGLRN IPNWLKEDL SDSPA
    CDS sequence
    • >TC013993 RA
      atgggagaa gacatcagg cccctgctg ggggtcccc 
      aagatacac aaggtcttg cgcaagctg agacacaaa 
      caccattgc gcctacaag gcttccaca ctcaaaaaa 
      tgcgtcgtc ttcgtcatt ttactcagc attatactc 
      atcatcatc tactcgcag tatataggg cactcgccc 
      tcctatctc acaggtctg atccagagg agcaaccgc 
      cccgagccc aacatccgc tgtggcact gtgaacggc 
      ccccgaatc ccgcaaaat cacgaccac aaaaccgag 
      gcccgactt cgcagctat cccaaagtt ctcgttttc 
      gtcgagaca atctactcg aaactcggc agagatatc 
      gccgaattg ctcgtccac acccgaatc aaatataag 
      gtggaagtc gccgggaaa agcctgccc gtgttaacg 
      aatctcgac aagggccgc tatggagtc atcgtcttt 
      gaaaatttc aacaagtat ctacagatg gacaagtgg 
      aatagggag ctgctcgac aagtactgt cgggagtat 
      tatgtaggg atgataggg tttataacg ccggaggaa 
      gagacgttt gtcgggtcg caactcaaa gggtttccg 
      ctcttcata cacacgaat ctcaaacta aaggacgca 
      gctttgaac gccgcctct cagattttg cgtctgact 
      cgcgctgga gagaccgcc tggggcgac cttcctggc 
      aacgactgg accgttttc caggccaac cattccacc 
      tacgagccc ctggaatgg gcccaccgt aacgacgat 
      taccaacct actgaaagt aacgtccga acccctctt 
      cccaccgtt atccaggat cacggcctc ttcgacaac 
      atccagcgc gttattttc ggttccggt ttaaaattc 
      tggctgcat cgtctcctc ttcctcgac tctcttagt 
      tatctaagc catgggcag ttgtctctg tcgctcgac 
      cgccgcctc ctggtggac atcgacgac atcttcgtc 
      ggcgaggtg ggcactaga ctgcgtccc gaggacgtt 
      aaagcactc atcgctacg caaacccgg attcaggcg 
      atgattccc gggtttaaa ttcaatctg ggcttttcg 
      gggaagtac atctatcac gggaatagc gaggaggat 
      aaaggtgac gatctcatc ttggaaaac gtcgataag 
      ttcatgtgg ttctcgcac atgtggaac catcaacaa 
      ccgcatctt tatgataat ctcacggtg ttgatggag 
      gatatggtg ttgaataag aatttcgcc aaagagaag 
      ggaattccg gtggattcc gggtattcg gtcgcgccg 
      catcattcc ggagtttat ccggtgcat gagctcttg 
      tacacggcg tggaagaaa gtctggaat attagggtc 
      acctccacg gaggagtat ccacatctc aggccagcc 
      aggttacgg aggggcttc attcatcgg aatatcatg 
      gttttgcct cgccagact tgcggtcta tttacccac 
      accatgctt attgagaaa tatcccggt ggtagagaa 
      aaactagac gaatcgata caaggaggc gaattattt 
      caaacaatt gtatacaat cctattaat atttttatg 
      actcacatg tcgaactac ggaaacgat agactaggt 
      ttatacact ttcgaatct gtaataaag tttatacaa 
      tgttggacc aatattaaa ctaagttca gcgccacct 
      ctccaacta gccgaaagc tatttcaag ttataccct 
      ggcgaatcg gatcccgtg tggggaaat ccatgcgac 
      gatcaacgt caccaaaaa atctggtcc aagaacaaa 
      tcgtgcgat tctctaccg aaatttcta gtgattggg 
      ccgcaaaaa accggcact acggccctg tacactttt 
      ctgtcttta catccggcg attgctagc aatcttcca 
      agtccggac accttcgaa gagatccag ttcttcaac 
      gcgcacaac tacctcaga ggattagat tggtacatg 
      aattttttc cccgtggac tccaactcg tcccactac 
      tacttcgag aagagtgcg acgtacttc gacggcgag 
      ttggtcccg aagcgagtg cacgccctc ctcccgcgt 
      gcaaaactc gtgacgatt ttgatttcg cccgccaaa 
      agggcgtac tcgtggtac cagcacacg aaagctcac 
      ggcgacatc atcgccaac aactacagc ttccaccag 
      gtgattaca gcgagcgac acggccccc aagccgctg 
      cgagacctc cgaaatcgg tgccttaac ccggggaaa 
      tacgcgcag catttggag cgctggctg acgtttttc 
      cagctccag gcgttgcac ataatcgac ggagacgag 
      ctcaagtcg aacccggtc gaggtcatg aacgaaatg 
      caaaagttt ttgaaaata acgcccttt ttcaactac 
      acggagcat ctgcggttc gatccgaag aaggggttc 
      tattgccag gtggtcagt ggggatcac accaagtgc 
      ttggggcgg agcaagggg cggcagtac cctcccatg 
      gaggagaag tcgctcaag ttgttgcag aggtattat 
      ctgagccat aacacggcc ctggtcaag ctgatgaag 
      cggatcggg ttgaggaat attcccaat tggttgaag 
      gaggatttg tccgattcg ccagcgtga
    mRNA sequence
    • >TC013993 RA
      tactagaca aaagattaa gtccggaag agcgaaatt 
      ggttcaaat tttttcgac taacaaata aattactaa 
      atgagtgtg gtaacgaat attatgata ataaattta 
      ttttaatgt agtgcgtct gtacaattt tattgttat 
      tgagccccc gaacccgac cgacgcgaa gttagtcgc 
      atttggacc gtcgtgctg tcaagtgct gtagctaac 
      ttcccgcca ctgtttcac gaaaataaa atgtgattt 
      ttgaaataa ataggggcg aagcacgac agacgagtg 
      atgtatttg aaatgcatt caccacgca aaaagtgat 
      catgtcgag agtgcagtg ctggagaaa aatggtaag 
      agtacatgt gttgtgtag tctctggaa gcacagtaa 
      atggaggac taacgtcgc gagctaacg ctctgtata 
      acattccgt agtcttagt gccatattc ctcgagata 
      cctcatatg caagtcaat cggtgatgg gagaagaca 
      tcaggcccc tgctggggg tccccaaga tacacaagg 
      tcttgcgca agctgagac acaaacacc attgcgcct 
      acaaggctt ccacactca aaaaatgcg tcgtcttcg 
      tcattttac tcagcatta tactcatca tcatctact 
      cgcagtata tagggcact cgccctcct atctcacag 
      gtctgatcc agaggagca accgccccg agcccaaca 
      tccgctgtg gcactgtga acggccccc gaatcccgc 
      aaaatcacg accacaaaa ccgaggccc gacttcgca 
      gctatccca aagttctcg ttttcgtcg agacaatct 
      actcgaaac tcggcagag atatcgccg aattgctcg 
      tccacaccc gaatcaaat ataaggtgg aagtcgccg 
      ggaaaagcc tgcccgtgt taacgaatc tcgacaagg 
      gccgctatg gagtcatcg tctttgaaa atttcaaca 
      agtatctac agatggaca agtggaata gggagctgc 
      tcgacaagt actgtcggg agtattatg tagggatga 
      tagggttta taacgccgg aggaagaga cgtttgtcg 
      ggtcgcaac tcaaagggt ttccgctct tcatacaca 
      cgaatctca aactaaagg acgcagctt tgaacgccg 
      cctctcaga ttttgcgtc tgactcgcg ctggagaga 
      ccgcctggg gcgaccttc ctggcaacg actggaccg 
      ttttccagg ccaaccatt ccacctacg agcccctgg 
      aatgggccc accgtaacg acgattacc aacctactg 
      aaagtaacg tccgaaccc ctcttccca ccgttatcc 
      aggatcacg gcctcttcg acaacatcc agcgcgtta 
      ttttcggtt ccggtttaa aattctggc tgcatcgtc 
      tcctcttcc tcgactctc ttagttatc taagccatg 
      ggcagttgt ctctgtcgc tcgaccgcc gcctcctgg 
      tggacatcg acgacatct tcgtcggcg aggtgggca 
      ctagactgc gtcccgagg acgttaaag cactcatcg 
      ctacgcaaa cccggattc aggcgatga ttcccgggt 
      ttaaattca atctgggct tttcgggga agtacatct 
      atcacggga atagcgagg aggataaag gtgacgatc 
      tcatcttgg aaaacgtcg ataagttca tgtggttct 
      cgcacatgt ggaaccatc aacaaccgc atctttatg 
      ataatctca cggtgttga tggaggata tggtgttga 
      ataagaatt tcgccaaag agaagggaa ttccggtgg 
      attccgggt attcggtcg cgccgcatc attccggag 
      tttatccgg tgcatgagc tcttgtaca cggcgtgga 
      agaaagtct ggaatatta gggtcacct ccacggagg 
      agtatccac atctcaggc cagccaggt tacggaggg 
      gcttcattc atcggaata tcatggttt tgcctcgcc 
      agacttgcg gtctattta cccacacca tgcttattg 
      agaaatatc ccggtggta gagaaaaac tagacgaat 
      cgatacaag gaggcgaat tatttcaaa caattgtat 
      acaatccta ttaatattt ttatgactc acatgtcga 
      actacggaa acgatagac taggtttat acactttcg 
      aatctgtaa taaagttta tacaatgtt ggaccaata 
      ttaaactaa gttcagcgc cacctctcc aactagccg 
      aaagctatt tcaagttat accctggcg aatcggatc 
      ccgtgtggg gaaatccat gcgacgatc aacgtcacc 
      aaaaaatct ggtccaaga acaaatcgt gcgattctc 
      taccgaaat ttctagtga ttgggccgc aaaaaaccg 
      gcactacgg ccctgtaca cttttctgt ctttacatc 
      cggcgattg ctagcaatc ttccaagtc cggacacct 
      tcgaagaga tccagttct tcaacgcgc acaactacc 
      tcagaggat tagattggt acatgaatt ttttccccg 
      tggactcca actcgtccc actactact tcgagaaga 
      gtgcgacgt acttcgacg gcgagttgg tcccgaagc 
      gagtgcacg ccctcctcc cgcgtgcaa aactcgtga 
      cgattttga tttcgcccg ccaaaaggg cgtactcgt 
      ggtaccagc acacgaaag ctcacggcg acatcatcg 
      ccaacaact acagcttcc accaggtga ttacagcga 
      gcgacacgg cccccaagc cgctgcgag acctccgaa 
      atcggtgcc ttaacccgg ggaaatacg cgcagcatt 
      tggagcgct ggctgacgt ttttccagc tccaggcgt 
      tgcacataa tcgacggag acgagctca agtcgaacc 
      cggtcgagg tcatgaacg aaatgcaaa agtttttga 
      aaataacgc cctttttca actacacgg agcatctgc 
      ggttcgatc cgaagaagg ggttctatt gccaggtgg 
      tcagtgggg atcacacca agtgcttgg ggcggagca 
      aggggcggc agtaccctc ccatggagg agaagtcgc 
      tcaagttgt tgcagaggt attatctga gccataaca 
      cggccctgg tcaagctga tgaagcgga tcgggttga 
      ggaatattc ccaattggt tgaaggagg atttgtccg 
      attcgccag cgtgaattg ttgtactta tttggataa 
      gtcggtgtg atattaaat tagaacaat cttggagat 
      aataaatgg taattttta tgaaatgac atatcacgg 
      ttgaatttt aggcaatac tattctaaa attgaaatc 
      aattatgag tttttgagg cgttgtcca tttttcatg 
      ttggagtgt tttagctag aacatgatt gtgcaatag 
      ttttattcc ttacgtcca cgatgtgag cttaatagg 
      tgttcgaaa tatttagat tagttttca ttcacttca 
      agcatatct gttgactga atgtaccaa gctttgcgc 
      gtgaaataa ttgtgtata tatttttat ttataataa 
      acaaactaa ttcgtgcca tttttttgt acatagttc 
      tctcattgt ggcaattca cgattgtta gataatctt 
      catgtctat tttacgagg tcgatgtat attgcatgt 
      aatttataa cattcgaag atcacacat tgatgtaaa 
      tatttcaat tattgcata gctgttaaa agtggtaaa 
      atgacaata aaatgacat aacattc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY