Status
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Gene information
General information
TC011712 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_007424.3: 14603977..14608034
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
    		TC011712
    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_01881

    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 (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: 60.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 70.0% (includes death as larva, prepupa, pupa, adult)

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

    adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011712 RA
      MSNVVCFTL RGGRSVLCK GTVDLSSGK VCKILACKF 
STKPRRSKI FTDIAETVK DIPNGSKLL VGGFGLCGI 
PENLIAALL AHPSQNYTV VSNNAGVEN FGLGLLLQK 
RKIKRMISS YVGENPEFE RQYLSGELE LELTPQGTL 
AERIRAGGA GIPAFYTPT AFGTLVHEG GAPICYDKE 
GKIKIASPP RQAQTFGGK NYIMEEAIT GDFALIKAW 
KADPYGNLI FNKSARNFN PAMAKAAKI TIAEVEEIV 
EVGQIGPDE VHLPGIFVD RVVKGTKYE KRIEKVCVS 
EEGSGKGGG KSPAALLRE RIIRRAALE FKDGMYANL 
GIGMPMLAS NYIPNDMEV FLQSENGIL GLGPFPTSK 
NVDPDLINA GKETVTVVP GASYFGSDD SFAMIRGGH 
IDLTMLGAM EVSQFGDLA NWMIPKKLV KGMGGAMDL 
VAAPGTKVV VCMEHNAKN GSPKILEKC TLPLTGKQC 
VDMIITEKA VFEIDQTKG LTLVEIADE VTEEDVKKA 
TACKFEVSK DLKKMGQI
    CDS sequence
    • >TC011712 RA
      atgtcgaac gtggtttgt tttactttg agaggtgga 
aggagtgtg ttatgtaag ggaacggtg gatttgtcg 
tccggaaag gtgtgcaag atcttggct tgtaaattc 
tccaccaag ccccgccgc agcaaaatc ttcaccgac 
atcgccgaa accgtcaag gacatcccc aatggctcc 
aaactcctc gttggaggt ttcggcctt tgcggcatc 
cccgaaaac ctcatcgcc gcccttttg gcccacccc 
tcccagaac tacaccgtc gtctccaac aacgccggt 
gtcgaaaac ttcggcttg ggcctcctt ctccagaaa 
cgcaaaatc aaacgaatg atttcctcc tacgttgga 
gaaaatccc gaatttgaa cgccaatac ctgtccgga 
gaactggaa ctcgagctc acgccacag ggaactctc 
gccgaacgg attcgggct ggaggtgcc gggatcccg 
gctttttac acacctact gccttcggg acgttggtc 
catgaaggc ggagccccg atttgctac gacaaggag 
gggaaaatc aaaattgcg agccctcca agacaagca 
cagaccttt ggagggaaa aactacatc atggaggag 
gccatcacg ggggatttc gccctcatc aaggcctgg 
aaagccgac ccttacggc aacttgatt tttaacaaa 
tcggcccgg aattttaac ccggccatg gccaaagcg 
gccaaaatc accatcgcc gaagtggag gaaatagtc 
gaggtgggc cagataggg cctgatgag gtccacttg 
cctggaatt ttcgtcgac agagtcgtc aaaggcaca 
aaatacgag aaaagaatc gagaaagtg tgtgttagt 
gaggaaggg agtggtaaa gggggtggc aaatcacca 
gctgccctc ctacgggag cggatcatc cgtagggcc 
gctctggag tttaaggac gggatgtat gccaatttg 
gggatcggg atgccgatg ctcgcctcc aactacatc 
cccaacgac atggaggtg ttcctccaa tccgagaac 
gggattctg ggattaggg ccgttccca acctccaaa 
aacgtggac ccggacctg atcaatgcc gggaaggag 
actgtgact gtggtcccg ggagcgtcg tacttcggg 
agtgatgat agttttgcc atgattcgg ggagggcac 
attgatttg acaatgttg ggggcaatg gaggtgtcg 
caatttggc gacttggcc aactggatg atcccgaaa 
aagcttgtc aaaggaatg ggtggtgcg atggacctg 
gtggcggcc cccggaacc aaagtggtg gtctgtatg 
gagcacaac gccaagaac ggaagtccc aaaattttg 
gaaaagtgc accttgccc ctaactggc aaacaatgc 
gttgacatg atcatcacc gagaaggct gtgtttgaa 
atcgaccaa accaaaggt ctcaccctt gttgaaatc 
gccgacgaa gtcacggaa gaagacgtc aagaaggcc 
acagcttgt aaattcgaa gtgtcgaaa gatttgaaa 
aaaatgggt caaatttaa
    mRNA sequence
    • >TC011712 RA
      tttcaatac tacggcagc tgtggcgag ttacttgcg 
ttttcgcac aatgtcgaa cgtggtttg ttttacttt 
gagaggtgg aaggagtgt gttatgtaa gggaacggt 
ggatttgtc gtccggaaa ggtgtgcaa gatcttggc 
ttgtaaatt ctccaccaa gccccgccg cagcaaaat 
cttcaccga catcgccga aaccgtcaa ggacatccc 
caatggctc caaactcct cgttggagg tttcggcct 
ttgcggcat ccccgaaaa cctcatcgc cgccctttt 
ggcccaccc ctcccagaa ctacaccgt cgtctccaa 
caacgccgg tgtcgaaaa cttcggctt gggcctcct 
tctccagaa acgcaaaat caaacgaat gatttcctc 
ctacgttgg agaaaatcc cgaatttga acgccaata 
cctgtccgg agaactgga actcgagct cacgccaca 
gggaactct cgccgaacg gattcgggc tggaggtgc 
cgggatccc ggcttttta cacacctac tgccttcgg 
gacgttggt ccatgaagg cggagcccc gatttgcta 
cgacaagga ggggaaaat caaaattgc gagccctcc 
aagacaagc acagacctt tggagggaa aaactacat 
catggagga ggccatcac gggggattt cgccctcat 
caaggcctg gaaagccga cccttacgg caacttgat 
ttttaacaa atcggcccg gaattttaa cccggccat 
ggccaaagc ggccaaaat caccatcgc cgaagtgga 
ggaaatagt cgaggtggg ccagatagg gcctgatga 
ggtccactt gcctggaat tttcgtcga cagagtcgt 
caaaggcac aaaatacga gaaaagaat cgagaaagt 
gtgtgttag tgaggaagg gagtggtaa agggggtgg 
caaatcacc agctgccct cctacggga gcggatcat 
ccgtagggc cgctctgga gtttaagga cgggatgta 
tgccaattt ggggatcgg gatgccgat gctcgcctc 
caactacat ccccaacga catggaggt gttcctcca 
atccgagaa cgggattct gggattagg gccgttccc 
aacctccaa aaacgtgga cccggacct gatcaatgc 
cgggaagga gactgtgac tgtggtccc gggagcgtc 
gtacttcgg gagtgatga tagttttgc catgattcg 
gggagggca cattgattt gacaatgtt gggggcaat 
ggaggtgtc gcaatttgg cgacttggc caactggat 
gatcccgaa aaagcttgt caaaggaat gggtggtgc 
gatggacct ggtggcggc ccccggaac caaagtggt 
ggtctgtat ggagcacaa cgccaagaa cggaagtcc 
caaaatttt ggaaaagtg caccttgcc cctaactgg 
caaacaatg cgttgacat gatcatcac cgagaaggc 
tgtgtttga aatcgacca aaccaaagg tctcaccct 
tgttgaaat cgccgacga agtcacgga agaagacgt 
caagaaggc cacagcttg taaattcga agtgtcgaa 
agatttgaa aaaaatggg tcaaattta ataaaattt 
tgaaaaaaa tcttgtgtt ttattcgcg aaacttggc 
cttgacgaa ggccggaag cgggattag gtacaaaaa 
caagttgaa gacgaccat tccaagagc gaaggcgaa 
agtgatccc aatgttcat gtcaaagtc gaggattcc 
atcgctgaa aataacgtc agtcttgtc ccttgagta 
cctctccac tagaaattc ctgtccgtt tgagtaccg 
acaaaagcc ggagctgct cgaagccgc cgtttcgat 
caaattcat gttggtaca attgtgctt caggtcgta 
cggtagtgt ttcaagtag ttccggaat taaaaacgt 
ctgtcgatt gaggaaagc ggacgcgta ccgcacttg 
agtagcata ggttaggta gtacaacca ttgttgtaa 
ccctttgat cga

    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