Status
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Gene information
General information
TC000357 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_007417.3: 12568195..12570336
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
    		TC000357
    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_00078

    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: 70.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 5 (9 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen musculature partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    low validity due to technical reasons - should be repeated: stink gland phenotype not scorable, adult phenotype not scorable, lethality not scorable,
    adult progeny in the well
    Adult morphology
    low validity due to technical reasons - should be repeated: stink gland phenotype not scorable, adult phenotype not scorable, lethality not scorable,
    adult progeny in the well
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000357 RA
      MPTCTSESL SRVWPSNES IHAGSISSS SGIQSPSSP 
NSLSPISTS PDNTLRRRR IRRAASLGT VIQEPFVIR 
SDCRDSRSQ SPVLNQREE EDDSFSVLA DIIGWYPCF 
LLRIAKAVI LAVLPRTWR QLIFALPML WISMWVWFF 
TQLINLPLN IIKLMLSIV LSPSSERTR KKRTVLISG 
GSTIQALHL ARNFYSAGA RVVVCEIDG LFALTRFST 
AVSRFYTVP KPTSDQQQN YVRALCEIV DKEQAMYYI 
PVSSTTSAY FDAVAKPHL ELLGCTCFC PGIKEVWAL 
DDTLEVLKR CQKYSIPTP TYHAITSKD DVYQLYDTG 
AIRMGRYVM TTAGPSGLR ERSKIILPV ARNDLKLPN 
DISEQRPWV VVQDVEGEH YLTCTTVKQ SQVIANVTC 
RMDKSSNGL VPIENKEIN AWLTTFFGK LNLLRPITG 
HVSFRFVIP KDSTTIIPL SSRVGVSLP YICYTNVHP 
RLVWKPCKH FSRQNSGPL VSENGRYWM GETVMTTIR 
NPNLEAVTR LIGTVIDKR EALFAIWDP LPYCAYYHM 
LLPFKNMLG FMQRRQDSF PRPMTNPIR
    CDS sequence
    • >TC000357 RA
      atgcccact tgtacttcg gaaagttta tcacgagtg 
tggccaagc aatgagagc atccatgcc gggagcatc 
agcagcagc tcggggatc cagagtccc agctccccc 
aactcccta tccccgatc tccacctcc ccggacaac 
acgctccgg agacggcgg atacgacgc gccgcgtcc 
ctcggcacc gtcatccag gagcccttc gtcatccgc 
tcggattgt cgcgactcg cggagccaa agtcccgtc 
ctgaaccag agggaggag gaggatgac tccttctcg 
gtcctggcg gacatcatc ggctggtac ccgtgcttt 
ctgctgcgc atcgccaag gccgtgatt ttggccgtt 
ttgccccgc acttggaga caactcatt ttcgctctc 
cccatgttg tggatctca atgtgggtc tggttcttc 
acgcagttg atcaatctg ccgctgaat ataatcaaa 
ctgatgctc tctatagtc ctatcaccg agtagtgaa 
aggactagg aagaaacga acggttttg ataagtggc 
gggagcacg atccaggcg cttcacttg gcccggaat 
ttctactcg gcgggggcg agagtcgtg gtttgcgaa 
atcgacggt ttgttcgcc ttaactcgc ttttctacc 
gctgtgagt cggttttac acggtcccg aaacccaca 
agtgaccaa caacaaaac tacgtgagg gcactttgc 
gaaatcgtg gataaggaa caagcgatg tattatatc 
cctgttagt tccaccacc tcggcgtac tttgacgcg 
gtggcgaag ccacacttg gaactcctg gggtgcact 
tgtttctgc cccggaatc aaagaagtg tgggctttg 
gacgacacg ttagaagtc ctcaaacgt tgccagaaa 
tactcaatt ccgaccccg acttaccac gcaatcacc 
tcaaaagac gatgtgtac cagttgtac gacacgggg 
gccattcga atgggacgc tacgttatg acaacagcg 
ggccccagt ggcctccgc gagcgctca aaaatcata 
ctcccggtc gcacgaaac gacctaaaa ctcccgaat 
gatataagc gagcagcgg ccttgggtt gtggtccag 
gacgtcgaa ggggagcat tatttgact tgcaccacc 
gtcaagcaa tcgcaagtt atcgctaac gtgacttgc 
cgcatggat aagtcgagc aatggactt gtcccgatc 
gaaaacaag gaaattaac gcgtggctg acgaccttc 
ttcggcaaa ttgaacctt ctaaggccc ataaccggt 
catgtcagc ttccgattt gtcatcccg aaagacagt 
acaacgatt atcccgttg agtagccgc gtgggggtc 
tcattgccg tacatttgc tacacgaac gtccatccc 
agattggtt tggaagccg tgcaagcac ttcagccgg 
cagaactcc gggccgttg gtcagcgaa aacgggagg 
tactggatg ggggagacc gtcatgacg acgatcagg 
aacccgaac cttgaggcc gtgacgagg ctgatcggg 
acggtcatc gacaagagg gaggcgctg ttcgccatt 
tgggacccc ttgccctac tgtgcctac taccacatg 
ttgttgcct ttcaagaac atgctgggg ttcatgcag 
cggcggcag gacagcttt cccaggccg atgactaac 
ccgatccgc taa
    mRNA sequence
    • >TC000357 RA
      gaacgtgat tcttcgttc gtcgaatgg aaggggtac 
tcggaacca aggggcata gtacaacat gaagcttat 
aagagacct gtgcctcgt cactgtccg tttattaaa 
ttaatgact cgacggtgg cacacatct caagtgctt 
gaaattgaa ttagtgtct gtgcaagat gcccacttg 
tacttcgga aagtttatc acgagtgtg gccaagcaa 
tgagagcat ccatgccgg gagcatcag cagcagctc 
ggggatcca gagtcccag ctcccccaa ctccctatc 
cccgatctc cacctcccc ggacaacac gctccggag 
acggcggat acgacgcgc cgcgtccct cggcaccgt 
catccagga gcccttcgt catccgctc ggattgtcg 
cgactcgcg gagccaaag tcccgtcct gaaccagag 
ggaggagga ggatgactc cttctcggt cctggcgga 
catcatcgg ctggtaccc gtgctttct gctgcgcat 
cgccaaggc cgtgatttt ggccgtttt gccccgcac 
ttggagaca actcatttt cgctctccc catgttgtg 
gatctcaat gtgggtctg gttcttcac gcagttgat 
caatctgcc gctgaatat aatcaaact gatgctctc 
tatagtcct atcaccgag tagtgaaag gactaggaa 
gaaacgaac ggttttgat aagtggcgg gagcacgat 
ccaggcgct tcacttggc ccggaattt ctactcggc 
gggggcgag agtcgtggt ttgcgaaat cgacggttt 
gttcgcctt aactcgctt ttctaccgc tgtgagtcg 
gttttacac ggtcccgaa acccacaag tgaccaaca 
acaaaacta cgtgagggc actttgcga aatcgtgga 
taaggaaca agcgatgta ttatatccc tgttagttc 
caccacctc ggcgtactt tgacgcggt ggcgaagcc 
acacttgga actcctggg gtgcacttg tttctgccc 
cggaatcaa agaagtgtg ggctttgga cgacacgtt 
agaagtcct caaacgttg ccagaaata ctcaattcc 
gaccccgac ttaccacgc aatcacctc aaaagacga 
tgtgtacca gttgtacga cacgggggc cattcgaat 
gggacgcta cgttatgac aacagcggg ccccagtgg 
cctccgcga gcgctcaaa aatcatact cccggtcgc 
acgaaacga cctaaaact cccgaatga tataagcga 
gcagcggcc ttgggttgt ggtccagga cgtcgaagg 
ggagcatta tttgacttg caccaccgt caagcaatc 
gcaagttat cgctaacgt gacttgccg catggataa 
gtcgagcaa tggacttgt cccgatcga aaacaagga 
aattaacgc gtggctgac gaccttctt cggcaaatt 
gaaccttct aaggcccat aaccggtca tgtcagctt 
ccgatttgt catcccgaa agacagtac aacgattat 
cccgttgag tagccgcgt gggggtctc attgccgta 
catttgcta cacgaacgt ccatcccag attggtttg 
gaagccgtg caagcactt cagccggca gaactccgg 
gccgttggt cagcgaaaa cgggaggta ctggatggg 
ggagaccgt catgacgac gatcaggaa cccgaacct 
tgaggccgt gacgaggct gatcgggac ggtcatcga 
caagaggga ggcgctgtt cgccatttg ggacccctt 
gccctactg tgcctacta ccacatgtt gttgccttt 
caagaacat gctggggtt catgcagcg gcggcagga 
cagctttcc caggccgat gactaaccc gatccgcta 
atagtttca tctcattag gagagagaa aacagcctg 
agtattgtg tgtgtatgg actgtgcat tatttattc 
tggttacca aaggttgca tttatttat agataatgt 
gccattcgt ttgtatttt tttaagttt tgtacaaat 
attgttatt gtatatatt gtgtatata caactagta 
tgttacatt aactcgcgg gtaccacct ggctagtgt 
agtaccaag ttttgtaat ttgtggttt ttattttaa 
taaaaatat cagtcgaga

    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