Status
Please wait ...
Gene information
General information
TC013580 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: 3490423..3493772
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
    TC013580
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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_10188

    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 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): more than 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
    • >TC013580 RA
      MGLQKISSV GRLLLIIIG LTWAQEDSL RSALNAIDR 
      RQRDLSEFS RYDDDSLGD YGYSLEGPD DLAFLSPSE 
      YSTDRDLDK NPTFERLLL DYLEDGSYP DSGRANRDE 
      DVKKRISSS FRERLEEDK ERQLEELAQ SFLPNADNY 
      QEGNDEDYS QLIRELWEK YRNYPNLYN HPRVYYNNE 
      NKKRSYYPG LGLDSIGLR KRNKYYDSD LTDSPYLPN 
      YNSRDDFYN KYQDDDDRD TDANYYDWS KAKHHKRDR 
      KYDSRQRSY PMKRFPVSK RSSSYEPPQ SEITHEHKR 
      STTKKDSVE KTDPKVAQD LSNIFGTVT TPKPEKSKT 
      AKKELAKET KPKMKSSKK ASASKEEVA DAPSDKPLQ 
      IQKKSINWS DYFGLDRRK KSDDELDKQ WLLERYHKA 
      IALATKRNA EYPLQSFKN HDQPSKKES DKKNKSEEL 
      KLSEMDAKL KNMEDTIID DALKFTGAH EGATDSQEI 
      QEVKDRVIS RLAAAYSLE KMRRALGEY KLSVEKEKE 
      RLKQHKSDD YDISEEKRV AVPRKQAVD EEREKTPEG 
      DNTIKCSQG DEDCEEQNY RAPSEVLEQ TVFEECPKV 
      QRACNEVAT VLGHYARVF ETACNMHQM CLLCTNNSW 
      FAPTRQCNV LFLSKAFEL CDGKQECQK EAQKSVRYL 
      LDVNRSLRL EPLGECELA CPDRR
    CDS sequence
    • >TC013580 RA
      atggggtta caaaaaatc tctagtgtt ggaaggctg 
      ttactgata ataattgga ttgacgtgg gctcaagag 
      gattctctt cgtagcgca ttaaacgcg attgatcga 
      cgccaaaga gatttatct gaattttct agatatgac 
      gatgacagt ttaggggac tacggatat tcgttagaa 
      ggtcctgat gaccttgct tttctgtct ccatccgaa 
      tatagcaca gatcgtgac ttagacaag aatccgact 
      ttcgaacga cttttatta gattacttg gaagacggt 
      tcttatccc gattcaggg cgtgctaat cgtgatgag 
      gatgttaaa aaaagaatt tcctcctcg ttcagagag 
      cgcttggag gaggataag gagcggcaa ttagaggaa 
      ttagcgcaa agttttcta ccaaacgcc gacaattac 
      caagaaggg aacgacgaa gactacagt cagctaatt 
      agagaactt tgggagaaa taccgaaac tatccgaat 
      ttatacaac catccgaga gtttactac aacaatgaa 
      aacaagaag cggtcttat tacccgggt ctaggactg 
      gacagcatc ggattacga aagcgcaac aaatactac 
      gactcagac ctaaccgac tccccttat ttacccaac 
      tacaattca agagacgat ttctacaac aaataccaa 
      gacgacgac gaccgggac accgacgcg aattattac 
      gactggtct aaagccaaa caccacaaa agagaccgg 
      aaatacgac tctcgacaa aggtcatat ccgatgaaa 
      cgcttcccc gtgtcaaag cgaagcagc agctacgag 
      cccccgcag tcggagatc acccacgag cacaaacgc 
      tcaacaacc aaaaaggac tcagtcgag aaaaccgac 
      ccgaaagtc gcccaagac ttgagcaac atcttcggc 
      accgtcaca acccccaag ccggaaaag tccaaaacc 
      gccaaaaaa gaactagca aaagagacg aaacccaag 
      atgaaatcc tccaaaaaa gcgagcgcg tccaaagaa 
      gaagtggcc gacgccccc agcgataag cccctccaa 
      atccagaag aaatcgatc aactggtcc gattacttc 
      ggcctggac cggcgcaag aaatccgac gacgaactc 
      gacaagcag tggttgctg gagcggtac cacaaagcc 
      atcgccttg gccaccaag cgcaacgcc gaatacccg 
      ctccagtcg ttcaaaaac cacgaccag cccagcaaa 
      aaggagtcc gacaagaag aacaaatcc gaagaactg 
      aaactgtcc gaaatggac gcgaaattg aagaacatg 
      gaggacacg atcatcgac gacgcgctt aaattcacc 
      ggtgcccac gaaggcgcc accgactcc caggagatc 
      caggaggtg aaggaccgt gttatctcg cggctagcg 
      gccgcctac agcttggaa aagatgcgc cgggcctta 
      ggcgagtac aaactcagc gtcgagaag gaaaaggag 
      cggttgaag cagcacaaa agcgacgac tacgacatt 
      tcggaggaa aaaagagtg gcagtgccg cggaaacag 
      gccgttgac gaagagcgg gagaagact ccagaaggg 
      gacaatacc atcaagtgc tcccaaggc gacgaggac 
      tgcgaggag cagaattac cgggcgcct tccgaggtc 
      ttggagcaa acagttttc gaggagtgt cccaaggtg 
      cagcgggcg tgcaatgag gtggccacg gtcctgggc 
      cactatgct agggtcttc gagacggcg tgcaacatg 
      caccagatg tgtctcctt tgcactaat aacagctgg 
      ttcgccccg actcgccaa tgcaacgtc ctgttcctg 
      agcaaggcg ttcgagctg tgcgatggc aagcaggag 
      tgccagaag gaggcgcaa aagtcggtc cggtatttg 
      ctcgatgtt aaccgttcg ttaagactg gaaccgctg 
      ggggagtgc gagctcgcc tgtcccgac agacgataa
    mRNA sequence
    • >TC013580 RA
      gggtattcg tgctgtgga aattcgttt atcatcatc 
      aaattttga taaaaccgg ctgtatgaa gcattaagg 
      aatggggtt acaaaaaat ctctagtgt tggaaggct 
      gttactgat aataattgg attgacgtg ggctcaaga 
      ggattctct tcgtagcgc attaaacgc gattgatcg 
      acgccaaag agatttatc tgaattttc tagatatga 
      cgatgacag tttagggga ctacggata ttcgttaga 
      aggtcctga tgaccttgc ttttctgtc tccatccga 
      atatagcac agatcgtga cttagacaa gaatccgac 
      tttcgaacg acttttatt agattactt ggaagacgg 
      ttcttatcc cgattcagg gcgtgctaa tcgtgatga 
      ggatgttaa aaaaagaat ttcctcctc gttcagaga 
      gcgcttgga ggaggataa ggagcggca attagagga 
      attagcgca aagttttct accaaacgc cgacaatta 
      ccaagaagg gaacgacga agactacag tcagctaat 
      tagagaact ttgggagaa ataccgaaa ctatccgaa 
      tttatacaa ccatccgag agtttacta caacaatga 
      aaacaagaa gcggtctta ttacccggg tctaggact 
      ggacagcat cggattacg aaagcgcaa caaatacta 
      cgactcaga cctaaccga ctcccctta tttacccaa 
      ctacaattc aagagacga tttctacaa caaatacca 
      agacgacga cgaccggga caccgacgc gaattatta 
      cgactggtc taaagccaa acaccacaa aagagaccg 
      gaaatacga ctctcgaca aaggtcata tccgatgaa 
      acgcttccc cgtgtcaaa gcgaagcag cagctacga 
      gcccccgca gtcggagat cacccacga gcacaaacg 
      ctcaacaac caaaaagga ctcagtcga gaaaaccga 
      cccgaaagt cgcccaaga cttgagcaa catcttcgg 
      caccgtcac aacccccaa gccggaaaa gtccaaaac 
      cgccaaaaa agaactagc aaaagagac gaaacccaa 
      gatgaaatc ctccaaaaa agcgagcgc gtccaaaga 
      agaagtggc cgacgcccc cagcgataa gcccctcca 
      aatccagaa gaaatcgat caactggtc cgattactt 
      cggcctgga ccggcgcaa gaaatccga cgacgaact 
      cgacaagca gtggttgct ggagcggta ccacaaagc 
      catcgcctt ggccaccaa gcgcaacgc cgaataccc 
      gctccagtc gttcaaaaa ccacgacca gcccagcaa 
      aaaggagtc cgacaagaa gaacaaatc cgaagaact 
      gaaactgtc cgaaatgga cgcgaaatt gaagaacat 
      ggaggacac gatcatcga cgacgcgct taaattcac 
      cggtgccca cgaaggcgc caccgactc ccaggagat 
      ccaggaggt gaaggaccg tgttatctc gcggctagc 
      ggccgccta cagcttgga aaagatgcg ccgggcctt 
      aggcgagta caaactcag cgtcgagaa ggaaaagga 
      gcggttgaa gcagcacaa aagcgacga ctacgacat 
      ttcggagga aaaaagagt ggcagtgcc gcggaaaca 
      ggccgttga cgaagagcg ggagaagac tccagaagg 
      ggacaatac catcaagtg ctcccaagg cgacgagga 
      ctgcgagga gcagaatta ccgggcgcc ttccgaggt 
      cttggagca aacagtttt cgaggagtg tcccaaggt 
      gcagcgggc gtgcaatga ggtggccac ggtcctggg 
      ccactatgc tagggtctt cgagacggc gtgcaacat 
      gcaccagat gtgtctcct ttgcactaa taacagctg 
      gttcgcccc gactcgcca atgcaacgt cctgttcct 
      gagcaaggc gttcgagct gtgcgatgg caagcagga 
      gtgccagaa ggaggcgca aaagtcggt ccggtattt 
      gctcgatgt taaccgttc gttaagact ggaaccgct 
      gggggagtg cgagctcgc ctgtcccga cagacgata 
      aactaggaa cgatcgatg tccggaagg gtcaagccc 
      ttgatttct ctcgacgcc atctaaatt gtatcgata 
      tttacgaca gccttgatt tatttcaat gggtgtatt 
      atcattgta acttattaa atgtacaca tagtaaatg 
      ttgcttcag aaatgacat taacactga agttcgttg 
      ttaaatatt tatattcta tttgtttat tcgaaatat 
      acagcgatt tatctttac acattctaa aacacgttc 
      aaagtaata aattccaac ttcattact gtacaggtt 
      taaattctc attgttgta tctaaattt tttagtgac 
      agggatgcg ttgaacgtg attttatta tgagcagtt 
      gactggagt cgatacggc gatttcatt agtgccctg 
      gaacgatcg tgacaataa tcccaaata tctgattaa 
      attaagaaa tttttgaca gggcgattt ccgcatcaa 
      acccacgtt tgaaatcgc cgcatcaag accatcgat 
      cttgcttag acaaaagga ctgtgctac tgtattaac 
      ggtttcaat atattttaa tggtaaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY