Status
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Gene information
General information
TC034301 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: 5285036..5339573
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
    		TC034301
    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_05177

    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

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

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC034301 RA
      MSNESSSLR DPPLTTNSS VEDSTTHIQ KLALAGLLS 
VVIVVVIIG NTLVILAVI TTKRLRTLG WVLCDIWVS 
LDILLCTAS ILSLCAISV DRYLAVTQP LSYSRRRRS 
KRLAFTMIL VVWMSSALI TCPPMFGWY EPGRHEEKN 
CRYNKNTGY VIFSAMGSF FIPMMVMLY VYVRISCVV 
AQRHDQLAH IDTHSRKSQ KLVISVKEE SDIDRVSSE 
CEDQNLRCP RYFRQISDA CGQSAEPLN QSLNHEQRK 
SLGTRSLRS PLNYSFNHE PLTAQRSAS LYRPQPFTP 
QRSRPESLN FEPATRVSS FRRETKTAQ TLSIVMGGF 
IACWLPFFI FYLLTPFIP SNQVNSLIM SYLTWLGWF 
NSAINPFIY AFYSPDFRI AFWRLTVKH FSKTRRPTS 
PFSTSEGRR RTRSILVTY FIVVIYIVL L
    CDS sequence
    • >TC034301 RA
      atgtcgaac gagtcgtct agcctgcgc gacccccca 
ttgacgacc aactccagc gtggaggac tccaccacc 
cacatccaa aagctggcc ctcgccggc ctcctcagc 
gtggtcatc gtcgtggtg atcatcggc aacactctc 
gttattctg gctgtgata acaacaaag cgattacgc 
acactcggc tgggtgctg tgcgacatc tgggtctcg 
ctcgatatc ctcctgtgc acggcatcg atcctgagc 
ctgtgtgcc atcagcgtg gaccgatac ctggccgtg 
actcagccc ctgagctac tccaggcga aggcgctcc 
aagaggttg gccttcacc atgatcctg gtggtgtgg 
atgagctcg gcgcttatc acctgtccg cccatgttt 
ggatggtac gagccagga aggcacgag gagaagaac 
tgcaggtac aataagaac acgggctat gtgatcttt 
tcagcgatg ggctcgttc ttcataccc atgatggtc 
atgctctac gtctacgtg cggatatcc tgtgtggtg 
gcccagagg cacgaccag ctcgcacac atcgacacc 
cattcgagg aaaagccaa aaactcgtc atcagcgtt 
aaggaagag tctgacatt gatcgagtt tcctctgaa 
tgtgaggac caaaacttg agatgtccc aggtatttt 
cgtcagata agtgatgca tgcgggcag tcggcggag 
cccctcaac cagagcctc aaccacgag cagcgtaaa 
tctctcggc actcgttcg ctccgctcg ccgttgaac 
tactccttc aatcacgag cctctgacg gcgcagcgc 
tccgccagc ctctaccgg ccgcagccg ttcacgcca 
cagcgctcc cggcccgag tccctcaac ttcgagccc 
gcgacgcgc gtctcctcc ttccgccgc gagaccaag 
acggcacag acgctcagc atcgtcatg ggcggcttc 
atcgcctgc tggctgccc ttcttcatt ttctacctg 
ctgacgccg ttcattccc agcaaccag gtcaactcg 
ctgatcatg tcctacttg acgtggctg ggctggttc 
aactcggcc atcaacccc ttcatctac gccttctac 
agccccgac ttcaggata gccttctgg cgactgact 
gttaagcat ttttcaaag acacgaagg ccgacttcg 
cctttcagc acaagtgag ggccggcgc cggacacgt 
tcgattcta gtcacatat tttatagtt gttatttat 
attgtacta ttgtaa
    mRNA sequence
    • >TC034301 RA
      ccgcataat cccgcctta aacccgatt aagctctag 
caaaaatga aacaaaccc ctgtaaaaa atctttcag 
ccaaattaa tgtgttgtt tctgttcca gcctcggga 
atccgatta aatctaatc gccgaaaag aaataaatg 
actaagaat gtcgaacga gtcgtctag cctgcgcga 
ccccccatt gacgaccaa ctccagcgt ggaggactc 
caccaccca catccaaaa gctggccct cgccggcct 
cctcagcgt ggtcatcgt cgtggtgat catcggcaa 
cactctcgt tattctggc tgtgataac aacaaagcg 
attacgcac actcggctg ggtgctgtg cgacatctg 
ggtctcgct cgatatcct cctgtgcac ggcatcgat 
cctgagcct gtgtgccat cagcgtgga ccgatacct 
ggccgtgac tcagcccct gagctactc caggcgaag 
gcgctccaa gaggttggc cttcaccat gatcctggt 
ggtgtggat gagctcggc gcttatcac ctgtccgcc 
catgtttgg atggtacga gccaggaag gcacgagga 
gaagaactg caggtacaa taagaacac gggctatgt 
gatcttttc agcgatggg ctcgttctt catacccat 
gatggtcat gctctacgt ctacgtgcg gatatcctg 
tgtggtggc ccagaggca cgaccagct cgcacacat 
cgacaccca ttcgaggaa aagccaaaa actcgtcat 
cagcgttaa ggaagagtc tgacattga tcgagtttc 
ctctgaatg tgaggacca aaacttgag atgtcccag 
gtattttcg tcagataag tgatgcatg cgggcagtc 
ggcggagcc cctcaacca gagcctcaa ccacgagca 
gcgtaaatc tctcggcac tcgttcgct ccgctcgcc 
gttgaacta ctccttcaa tcacgagcc tctgacggc 
gcagcgctc cgccagcct ctaccggcc gcagccgtt 
cacgccaca gcgctcccg gcccgagtc cctcaactt 
cgagcccgc gacgcgcgt ctcctcctt ccgccgcga 
gaccaagac ggcacagac gctcagcat cgtcatggg 
cggcttcat cgcctgctg gctgccctt cttcatttt 
ctacctgct gacgccgtt cattcccag caaccaggt 
caactcgct gatcatgtc ctacttgac gtggctggg 
ctggttcaa ctcggccat caacccctt catctacgc 
cttctacag ccccgactt caggatagc cttctggcg 
actgactgt taagcattt ttcaaagac acgaaggcc 
gacttcgcc tttcagcac aagtgaggg ccggcgccg 
gacacgttc gattctagt cacatattt tatagttgt 
tatttatat tgtactatt gtaatttat tcgcggacg 
gcgggcgaa tgcttgcga ttattgagc gagcgaatg 
gtcgcgcgt tgacgggtt ttgttacga ataaggtga 
agagggatt ggtaagtac acagttaaa ataactcaa 
aataaaata tgaagcaaa ttacggtaa ttgacattg 
tttggaaat ggtaattaa tacgcaatt atgactgcg 
attcataaa tgaattatt tcagttgaa aatccaatt 
ttccaatac acatattaa tttatg

    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