Status
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Gene information
General information
TC015393 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_007421.3: 251154..255231
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
    		TC015393
    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
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    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
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05809

    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 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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015393 RA
      MLLLIVFSL ILSVISDPN VPPFCDKCA CVNDDSNQF 
VVTCTKDVS SFMFDKASW IDAADNKPY SYSKVWIQN 
SPILTLKEQ FPVSNLIEL SLANNSIVS ISSDVFSNL 
QNMQMLDLS YNNIEILHP DAFNGQYLE GDWNPLRSL 
VKLYLAHNR IHSLDKDIF EHADRIELL SLSHNPLKI 
LDQSTAIAI TSLVYLKNL DLSYTGLSS LPAAFLHTP 
KKLIFLDLS GNQFTGIPD TLGDAHSLE TLYFNNNPM 
VNLTNKNGF PVISTLKYL HLSSMPNLV NISKESLSN 
LVNLTEFYC FNNPKLSYI DRDAFSSRR DGAEYKTWP 
PIKKLFLQN NKLASMDME VVLNWKDLV ALDLTENAW 
TCECENQWM IDELMPIYL QLDENKAKA LKCEAPIEM 
ASLTFYDVY QKQTTMRCL DLYGHRPER DGVLLVGIL 
AGVLITIPL VLFIIYAYQ RHWFGLFDN SPAGFSRQF 
YKRSVSTSE DAYL
    CDS sequence
    • >TC015393 RA
      atgttgtta cttattgta ttctcactg attttatcg 
gtgatttcg gacccaaac gttccaccc ttttgcgac 
aaatgtgcg tgtgttaat gacgattcc aatcaattt 
gtggtcact tgtaccaaa gacgtttcg tcctttatg 
tttgataaa gcatcatgg atcgatgca gctgataac 
aagccgtac agttattcc aaagtttgg attcagaat 
tcaccgatt ctgacgtta aaagagcaa tttccagtc 
tcaaaccta atcgagttg agtttagcc aacaattcg 
attgttagc attagcagt gatgtgttt agcaacctc 
caaaacatg caaatgttg gacctgagt tacaacaac 
attgaaatt ttgcatcct gatgctttt aatggccaa 
tatttggaa ggtgactgg aatccttta cgatccttg 
gttaagctc tatttggct cataacagg attcatagt 
cttgataag gatattttc gagcatgct gacaggatt 
gaactttta tcactgtct cacaatcct ttaaaaatc 
ctagatcag tcaactgca atagcaatc actagtttg 
gtctatttg aaaaatttg gatttgagt tatacaggt 
ttaagcagt cttccggct gcttttttg cacactcca 
aaaaaatta attttcttg gatttgagc ggaaaccag 
tttacggga attcccgat actttaggg gatgcacac 
agcttagaa acgctttat tttaataat aatcccatg 
gttaatttg accaataaa aacggtttt cctgtcatt 
tccactttg aaatatctc cacttgagt tcgatgccc 
aacttggtc aatatcagt aaagaatct ttaagtaat 
cttgttaat ttaactgaa ttttattgc ttcaacaac 
cccaaatta tcgtacatt gaccgagac gcgttttcg 
tcacgacgt gacggtgcc gaatacaaa acttggcca 
ccgatcaaa aaacttttt ctacaaaat aataaatta 
gcttcgatg gatatggaa gttgttttg aattggaag 
gatttggtt gcgcttgat ttaacagaa aacgcgtgg 
acgtgtgag tgcgaaaat caatggatg attgacgaa 
ttgatgccc atttatttg caactggac gagaataag 
gccaaagca cttaagtgt gaggcccca atcgagatg 
gcttccctg acattctac gacgtttat cagaaacaa 
acaacgatg cgatgtctt gacttatac ggtcataga 
cccgaacga gacggcgtt ctattggtt ggaattttg 
gctggtgtt ttaatcaca ataccattg gtattgttc 
ataatttac gcttatcag agacactgg tttggatta 
tttgataat tcaccggct ggtttttca cgccagttt 
tacaaacga agcgtttcg acatcagaa gacgcttat 
ctttaa
    mRNA sequence
    • >TC015393 RA
      gtgtaatgc aggaaatgc aaattttca gtatatttg 
ttgacgtat ttgttttcc atttataaa gcgaacgaa 
aggttaagt gtgacgtaa attaaagaa aatgcaatt 
ttagaattt acaaagctt tccagttgt tcaaacctg 
aagagtcta cgaccaact ggtccaaag ttattaatg 
tgccattcg ggtgcaaaa atcattttc tggatctgt 
gaattacta ggtaatttt tcacttgac ttggtaatt 
aattatcaa aaaacaatc atttttatg gcatctggt 
agagaattt cctgggctt tccagtggt ctaaacgcg 
aaaagtcta cgattatct ggaccaaag ttattgcta 
aaattcctg tcttatgta gaaatttat ttttagatc 
aatgagtca ctacgcaat ttttccctg actcggcaa 
ttaaacatc ataaaacaa tgactttta cttcacttg 
atagacaat ttcccaagc tttccaatg gtataaact 
gcaagactc tacaattac gtggtccaa atttattgc 
cattttcca agcttaaaa atctgtttt tggttaata 
cgttgctaa gcaattttt tgcctgact cggctacta 
gacatcaca aagcaatga gttttactt catttgata 
gagaatttt ccgggcttt ccattggta tagacggtg 
aaaacgtgc gaccatgtg ggtcaaact tattccttc 
catgtgtta attattttt tggacaaat gaatcgcta 
agtaatttt tttgtttta ctcggctac tagatatcc 
taaaacaat ggtttttac ttcattgga ttgagaatt 
tttcgggct ttccaatgg tacaaacgg caaaaacgt 
gcgaccaag taggctaaa gttattgcc aaattaatt 
tcgggtgta ttggatcaa tgagtcact cttgtatta 
accagaacg cagttatca cttatttgt ttaatatac 
ctgacgaaa ttttgttta aacaatgat aagataagt 
gagaattat tctgtcaac aacgaattg aaacattca 
gtgcgacat tattttgta attgtttta gtagtgagc 
caaaattag tgtaaaatc aagtgccaa aattgcagt 
ttttcgtcc agaaatcac caatgttgt tacttattg 
tattctcac tgattttat cggtgattt cggacccaa 
acgttccac ccttttgcg acaaatgtg cgtgtgtta 
atgacgatt ccaatcaat ttgtggtca cttgtacca 
aagacgttt cgtccttta tgtttgata aagcatcat 
ggatcgatg cagctgata acaagccgt acagttatt 
ccaaagttt ggattcaga attcaccga ttctgacgt 
taaaagagc aatttccag tctcaaacc taatcgagt 
tgagtttag ccaacaatt cgattgtta gcattagca 
gtgatgtgt ttagcaacc tccaaaaca tgcaaatgt 
tggacctga gttacaaca acattgaaa ttttgcatc 
ctgatgctt ttaatggcc aatatttgg aaggtgact 
ggaatcctt tacgatcct tggttaagc tctatttgg 
ctcataaca ggattcata gtcttgata aggatattt 
tcgagcatg ctgacagga ttgaacttt tatcactgt 
ctcacaatc ctttaaaaa tcctagatc agtcaactg 
caatagcaa tcactagtt tggtctatt tgaaaaatt 
tggatttga gttatacag gtttaagca gtcttccgg 
ctgcttttt tgcacactc caaaaaaat taattttct 
tggatttga gcggaaacc agtttacgg gaattcccg 
atactttag gggatgcac acagcttag aaacgcttt 
attttaata ataatccca tggttaatt tgaccaata 
aaaacggtt ttcctgtca tttccactt tgaaatatc 
tccacttga gttcgatgc ccaacttgg tcaatatca 
gtaaagaat ctttaagta atcttgtta atttaactg 
aattttatt gcttcaaca accccaaat tatcgtaca 
ttgaccgag acgcgtttt cgtcacgac gtgacggtg 
ccgaataca aaacttggc caccgatca aaaaacttt 
ttctacaaa ataataaat tagcttcga tggatatgg 
aagttgttt tgaattgga aggatttgg ttgcgcttg 
atttaacag aaaacgcgt ggacgtgtg agtgcgaaa 
atcaatgga tgattgacg aattgatgc ccatttatt 
tgcaactgg acgagaata aggccaaag cacttaagt 
gtgaggccc caatcgaga tggcttccc tgacattct 
acgacgttt atcagaaac aaacaacga tgcgatgtc 
ttgacttat acggtcata gacccgaac gagacggcg 
ttctattgg ttggaattt tggctggtg ttttaatca 
caataccat tggtattgt tcataattt acgcttatc 
agagacact ggtttggat tatttgata attcaccgg 
ctggttttt cacgccagt tttacaaac gaagcgttt 
cgacatcag aagacgctt atctttaat tatttgttt 
agttttttt ttaataaaa ttaaattaa attt

    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