Status
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Gene information
General information
TC013703 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: 5701239..5702793
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
    		TC013703
    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 *
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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
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05481

    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: 0.0% (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: > 50
     posterior terminus structure irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    urogomphi not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    urogomphi potentially transformed - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    abdomen segment number increased - 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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 4 (16 dpi)
    Days post injection

    Pupal morphology
    head not bent - Number of animals showing the phenotype: 6

    wings potentiallyshortened - Number of animals showing the phenotype: 6
    wings need termnot closed - Number of animals showing the phenotype: 6

    wings need termorientation irregular - Number of animals showing the phenotype: 6

    Adult morphology
    elytra not closed - Number of animals showing the phenotype: 4


    hindwing irregular - Number of animals showing the phenotype: 4


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013703 RA
      MTSALYLEH YLDSLEHLP IELQRNFTL MRDLDSRAQ 
GLMQNIDSL SDNFLRNQK TISPEEKKE QLFKIQSLF 
NKAKEYGDD KVQLAIQTY ELVDKHIRR LDNDLARFE 
SEIQDKALN SRNQDEPSV GKKGRKKTK DGKTEKKKR 
PGNSSEEDS TGTVRGTKK KKQKGAGST GNSGSTTGS 
GAKAALGEA TDSVSVLPG LAGIAHPSD VLDMPVDPN 
EPTYCLCHQ VSYGEMIGC DNPDCPIEW FHFACVGLT 
TKPKGKWYC PKCTQDRKK K
    • >TC013703 RB
      MTSALYLEH YLDSLEHLP IELQRNFTL MRDLDSRAQ 
GLMQNIDSL SDNFLRNQK TISPEEKKE QLFKIQSLF 
NKAKEYGDD KVQLAIQTY ELVDKHIRR LDNDLARFE 
SEIQDKALN SRNQDEPSV GKKGRKKTK DGKTEKKKR 
PGNSSEEDS TGTVRGTKK KKQKGAGST GNSGSTTGS 
GAKAALATD SVSVLPGLA GIAHPSDVL DMPVDPNEP 
TYCLCHQVS YGEMIGCDN PDCPIEWFH FACVGLTTK 
PKGKWYCPK CTQDRKKK
    CDS sequence
    • >TC013703 RA
      atgacgtct gccttgtat ttggagcat tacctggac 
agcttggaa catttacca atcgagttg caaagaaat 
ttcacttta atgcgggat ttagattcc cgggcgcaa 
ggtttaatg caaaatatt gactctcta tccgacaat 
tttttgaga aatcagaaa accattagt ccagaggag 
aagaaggaa caactgttt aaaatccaa tcgttattc 
aacaaagca aaagaatat ggtgacgat aaagtccag 
ttggcaatt caaacctat gaactagtt gataaacac 
attaggagg ttagacaat gatttagcg aggtttgag 
tctgaaatt caagacaaa gctctgaat tcccgcaac 
caggatgag ccctcagtt ggcaagaaa ggtaggaaa 
aaaaccaaa gatggtaaa acggagaag aagaaacgt 
cctggtaat tcaagtgaa gaagactcg acgggaaca 
gttcggggc acaaagaag aagaagcaa aagggggcc 
ggttctact ggaaatagt ggcagtact acaggcagt 
ggcgccaaa gctgcccta ggtgaggcc actgattca 
gtctctgta ctgccaggc ttagctgga atcgcacat 
ccgagcgac gttctggat atgcctgtc gatccaaac 
gaaccaaca tattgcctt tgtcatcaa gtatcatac 
ggagaaatg atcggttgt gataaccca gattgccct 
attgaatgg tttcatttc gcttgtgtg ggcttgaca 
actaaaccc aagggtaaa tggtactgc cctaaatgc 
acacaagac agaaagaag aaataa
    • >TC013703 RB
      atgacgtct gccttgtat ttggagcat tacctggac 
agcttggaa catttacca atcgagttg caaagaaat 
ttcacttta atgcgggat ttagattcc cgggcgcaa 
ggtttaatg caaaatatt gactctcta tccgacaat 
tttttgaga aatcagaaa accattagt ccagaggag 
aagaaggaa caactgttt aaaatccaa tcgttattc 
aacaaagca aaagaatat ggtgacgat aaagtccag 
ttggcaatt caaacctat gaactagtt gataaacac 
attaggagg ttagacaat gatttagcg aggtttgag 
tctgaaatt caagacaaa gctctgaat tcccgcaac 
caggatgag ccctcagtt ggcaagaaa ggtaggaaa 
aaaaccaaa gatggtaaa acggagaag aagaaacgt 
cctggtaat tcaagtgaa gaagactcg acgggaaca 
gttcggggc acaaagaag aagaagcaa aagggggcc 
ggttctact ggaaatagt ggcagtact acaggcagt 
ggcgccaaa gctgcccta gccactgat tcagtctct 
gtactgcca ggcttagct ggaatcgca catccgagc 
gacgttctg gatatgcct gtcgatcca aacgaacca 
acatattgc ctttgtcat caagtatca tacggagaa 
atgatcggt tgtgataac ccagattgc cctattgaa 
tggtttcat ttcgcttgt gtgggcttg acaactaaa 
cccaagggt aaatggtac tgccctaaa tgcacacaa 
gacagaaag aagaaataa
    mRNA sequence
    • >TC013703 RA
      attgaagaa attgaagta agtgttcgg taattttgt 
ccttttgtt tggataatt ttgattttt taaattttc 
tggaacata gtgaaatgt ggcgacgct ggaacgccg 
ttgtcaaat ctgacagct gtcagcgtc gtttttgta 
atgtgttgt tattattag cgccaaata ataggattt 
ttcttacga atttgaaag ttttgaaga gtattaagt 
gctaacatg acgtctgcc ttgtatttg gagcattac 
ctggacagc ttggaacat ttaccaatc gagttgcaa 
agaaatttc actttaatg cgggattta gattcccgg 
gcgcaaggt ttaatgcaa aatattgac tctctatcc 
gacaatttt ttgagaaat cagaaaacc attagtcca 
gaggagaag aaggaacaa ctgtttaaa atccaatcg 
ttattcaac aaagcaaaa gaatatggt gacgataaa 
gtccagttg gcaattcaa acctatgaa ctagttgat 
aaacacatt aggaggtta gacaatgat ttagcgagg 
tttgagtct gaaattcaa gacaaagct ctgaattcc 
cgcaaccag gatgagccc tcagttggc aagaaaggt 
aggaaaaaa accaaagat ggtaaaacg gagaagaag 
aaacgtcct ggtaattca agtgaagaa gactcgacg 
ggaacagtt cggggcaca aagaagaag aagcaaaag 
ggggccggt tctactgga aatagtggc agtactaca 
ggcagtggc gccaaagct gccctaggt gaggccact 
gattcagtc tctgtactg ccaggctta gctggaatc 
gcacatccg agcgacgtt ctggatatg cctgtcgat 
ccaaacgaa ccaacatat tgcctttgt catcaagta 
tcatacgga gaaatgatc ggttgtgat aacccagat 
tgccctatt gaatggttt catttcgct tgtgtgggc 
ttgacaact aaacccaag ggtaaatgg tactgccct 
aaatgcaca caagacaga aagaagaaa taatgcatc 
gatgcgtta aaagattag acaattttt tattttaac 
ttattcctt aagtttaaa ccgtttgaa aacatggtt 
ttgttacga aatagcaat aatgcattt gttatttta 
ttaaattta tatcgtgtg aattattaa ggaaataaa 
cgtaattta agcat
    • >TC013703 RB
      attgaagaa attgaagta agtgttcgg taattttgt 
ccttttgtt tggataatt ttgattttt taaattttc 
tggaacata gtgaaatgt ggcgacgct ggaacgccg 
ttgtcaaat ctgacagct gtcagcgtc gtttttgta 
atgtgttgt tattattag cgccaaata ataggattt 
ttcttacga atttgaaag ttttgaaga gtattaagt 
gctaacatg acgtctgcc ttgtatttg gagcattac 
ctggacagc ttggaacat ttaccaatc gagttgcaa 
agaaatttc actttaatg cgggattta gattcccgg 
gcgcaaggt ttaatgcaa aatattgac tctctatcc 
gacaatttt ttgagaaat cagaaaacc attagtcca 
gaggagaag aaggaacaa ctgtttaaa atccaatcg 
ttattcaac aaagcaaaa gaatatggt gacgataaa 
gtccagttg gcaattcaa acctatgaa ctagttgat 
aaacacatt aggaggtta gacaatgat ttagcgagg 
tttgagtct gaaattcaa gacaaagct ctgaattcc 
cgcaaccag gatgagccc tcagttggc aagaaaggt 
aggaaaaaa accaaagat ggtaaaacg gagaagaag 
aaacgtcct ggtaattca agtgaagaa gactcgacg 
ggaacagtt cggggcaca aagaagaag aagcaaaag 
ggggccggt tctactgga aatagtggc agtactaca 
ggcagtggc gccaaagct gccctagcc actgattca 
gtctctgta ctgccaggc ttagctgga atcgcacat 
ccgagcgac gttctggat atgcctgtc gatccaaac 
gaaccaaca tattgcctt tgtcatcaa gtatcatac 
ggagaaatg atcggttgt gataaccca gattgccct 
attgaatgg tttcatttc gcttgtgtg ggcttgaca 
actaaaccc aagggtaaa tggtactgc cctaaatgc 
acacaagac agaaagaag aaataatgc atcgatgcg 
ttaaaagat tagacaatt ttttatttt aacttattc 
cttaagttt aaaccgttt gaaaacatg gttttgtta 
cgaaatagc aataatgca tttgttatt ttattaaat 
ttatatcgt gtgaattat taaggaaat aaacgtaat 
ttaagcat

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY