Status
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Gene information
General information
TC011917 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: 11667137..11669372
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
    		TC011917
    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
    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_05124

    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)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011917 RA
      MKNKNFIRF LFGIIIVSL FLIIFRQHK PETIQNIVS 
TTHQQIRNF KDTFRDVDS KTLAADEKY LTLLGFTDS 
PRLYPHDIW RNTSLPVIV TYVMEGQES QAVGLINNV 
GRVLPNNTI LVYNLGLGN YGLKTLLNY CNNSRCQAL 
TFSLANFPS HVDEESIRA YRPLVIQDA LQRTGAVLF 
LECGYRFSR HLTHDVIMD LFEKRAKSQ GIVTWPMSL 
KNPVSSLTH KKMFQYFHT DAENFLFLQ MVNADVLLI 
VNTESVHNE IMLPWVKCA LTQDCIVPI GAQSAGCRF 
DKKPQYRYS GCHSYDTSA LNIVLGLKF NMDGSRYMF 
DESEKLFET VELSKAEAL LREFEQNIT TEGRFMSFD 
T
    CDS sequence
    • >TC011917 RA
      atgaagaat aagaatttc atcaggttt ctgttcgga 
ataatcata gtcagtttg tttttgatt atattcaga 
cagcataag cctgagacg atacagaac atcgtttct 
acaacccac caacaaatc cgcaatttc aaggacacg 
ttccgagat gttgactcg aagacgctt gccgccgac 
gagaaatat ctgactttg ttggggttc acagacagc 
ccccgactg tatccacat gacatctgg aggaacact 
tcactgcca gtcattgtc acgtatgtt atggaaggg 
caggaaagc caagctgtg ggacttatt aataacgta 
ggaagggtt ctgccaaac aatacaatt ctagtttat 
aaccttggt ttaggaaat tatggccta aaaacgctc 
ttaaattat tgcaacaac agccgatgt caggccttg 
acgttcagt ttggccaat tttccctcg cacgtggac 
gaggagagc atacgggcc tacaggccc cttgtcatc 
caggacgcc ctccagcgc accggcgcc gtgttgttc 
ctggagtgc gggtaccgc ttttcgcgg cacttgacc 
cacgacgtc atcatggac ctgtttgag aagcgggcg 
aagtcccag ggcatcgtc acgtggccc atgtcgcta 
aagaaccca gtttcgagt ctgacgcac aagaagatg 
ttccagtac ttccacacc gacgccgag aatttcctt 
ttcttgcag atggtgaac gcggacgtg cttttgatc 
gtcaacacg gagtcggtg cacaacgaa atcatgctg 
ccctgggtc aagtgcgcg ctgacccag gactgcatc 
gttccgatt ggggcgcag tcggccggg tgtcgcttc 
gacaaaaag ccccaatat cgatattcc gggtgccat 
agctacgac acgtcagcg ctcaatata gttctagga 
ctgaaattt aacatggac ggcagtcgg tacatgttt 
gacgagtcg gagaagctc ttcgagacg gttgagttg 
agcaaagcc gaggctctc ttgagagaa ttcgaacaa 
aatattact actgaaggg cgattcatg tctttcgac 
acgtaa
    mRNA sequence
    • >TC011917 RA
      acctcttca agtgatttt atcaaaaat ttgtataaa 
ttatggaaa ttcgcggct tgtgtgcga gttagcagg 
cgttttttt gacccattt ggcccccaa agtgcgttt 
ttatcatgt gaatgcaag cttgagact tgatggaaa 
tcgtgccgt gccccaatg aagaataag aatttcatc 
aggtttctg ttcggaata atcatagtc agtttgttt 
ttgattata ttcagacag cataagcct gagacgata 
cagaacatc gtttctaca acccaccaa caaatccgc 
aatttcaag gacacgttc cgagatgtt gactcgaag 
acgcttgcc gccgacgag aaatatctg actttgttg 
gggttcaca gacagcccc cgactgtat ccacatgac 
atctggagg aacacttca ctgccagtc attgtcacg 
tatgttatg gaagggcag gaaagccaa gctgtggga 
cttattaat aacgtagga agggttctg ccaaacaat 
acaattcta gtttataac cttggttta ggaaattat 
ggcctaaaa acgctctta aattattgc aacaacagc 
cgatgtcag gccttgacg ttcagtttg gccaatttt 
ccctcgcac gtggacgag gagagcata cgggcctac 
aggcccctt gtcatccag gacgccctc cagcgcacc 
ggcgccgtg ttgttcctg gagtgcggg taccgcttt 
tcgcggcac ttgacccac gacgtcatc atggacctg 
tttgagaag cgggcgaag tcccagggc atcgtcacg 
tggcccatg tcgctaaag aacccagtt tcgagtctg 
acgcacaag aagatgttc cagtacttc cacaccgac 
gccgagaat ttccttttc ttgcagatg gtgaacgcg 
gacgtgctt ttgatcgtc aacacggag tcggtgcac 
aacgaaatc atgctgccc tgggtcaag tgcgcgctg 
acccaggac tgcatcgtt ccgattggg gcgcagtcg 
gccgggtgt cgcttcgac aaaaagccc caatatcga 
tattccggg tgccatagc tacgacacg tcagcgctc 
aatatagtt ctaggactg aaatttaac atggacggc 
agtcggtac atgtttgac gagtcggag aagctcttc 
gagacggtt gagttgagc aaagccgag gctctcttg 
agagaattc gaacaaaat attactact gaagggcga 
ttcatgtct ttcgacacg taaatttta ggtcggacc 
aaattcagt gtgataata agcgtaaag ttattcctt 
tttgaaacc aaataatgc caagcactc gatttcgtt 
tcttgaacg gcgcagttg gccccgaac ttgtgattt 
agttggtat ttgctgtac aaaacgcat cttccttgt 
cgtttaggg cgcttgcag ccctttcag gtcacgtgg 
ctcggtatt ccaccacct tgtcgtttc tttgactgt 
acatagtta tttattgtt tctgttgta attgaagtg 
cttatttaa aaaataaaa aacacaata caaaacgtt 
ttattattt aaatacggt tggacacag cctccaatt 
attattata ttatcctcc tgcacagcc ttcttgatc 
aatgaagga tgaacgaga tgagccact taatctggc 
gattacggt aacacgaac agtcttatg actgattct 
cctaaacac ataaaacga tcagaaaga atatgtttt 
tttaacatt ttattggcc atttttaag cgtctactg 
aaatttgac gacattagc attttttat taaagaaga 
aggaattat

    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