Status
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Gene information
General information
TC034107
Former TC numbers

If one gene is splitted or genes are merged, the original TC numbers are listed. One listed former TC number indicates the previous gene has be splitted, serveral former TC number represents a merged gene.

TC005625 		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_007423.3: 10506287..10509308
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
    		TC034107
    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
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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_03992

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    cuticle remnants without visible segmentation, differentiation or axis - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants strongly fragmented (cuticle crumbs) - Penetrance (percentage of animals/eggs on slide): less than 30%

    cuticle everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    appendages partially random remaining - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva complete everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    antenna size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    antenna potentially fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Comment: antenna fused with the maxilla
    maxilla potentially fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    metathorax everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen partially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen complete everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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

    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection

    Fertility
    egg production: number <50% of expected -
    Comment: No phenotype found!
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC034107 RA
      MYSRTGETV VDITTPPDP AKIVHIARD RFEEGKTKP 
IKFRKKQLN NLVKFVQDN EDAILEALY QDFRKPKQE 
VVCYEIVPV VKEAKHAIN HLEEWAKPE KPKKSLVNL 
LDGVMVYND PFGVVLVMG AWNYPLALV LMPVIGAIA 
AGNCVVIKP SDLSPATSQ LMYKLLPNY LDPECYPVY 
QGGVKETTE LLKEKFDYI FYTGSTSVG QIVHKAANR 
HLTPVTLEL GGKSPAYID NSADITKTV KRILWGKCI 
NSGQTCIAP DYILCTKEV QDKFVKYAE KALLEFYGS 
DIKDSNDYS RIITDRHFE RLVNLLPGL KIAVGGRYE 
QKDRFIEPT IAIDVNPNH AIMQEEIFG PILPIIPIN 
NIDEAITFI NRRNKPLAL YIFSTRKQD REKLLSKTS 
SGGVCVNDT ILHASVDVL PFGGVGTSG MGSYHGKKT 
FDTFTHKKS VLVRDFQAI PEKIMASRY PPYSNSKIS 
LIQMALEER KRVPLKYLP HFVMFLLGV GITIAVYFL 
YLYLEV
    CDS sequence
    • >TC034107 RA
      atgtattca agaaccggc gaaacagtc gtggacata 
acaacacct ccagacccg gcgaaaatc gtccacatc 
gccagagac cgcttcgaa gagggcaaa accaagccg 
attaaattc cggaagaag cagctcaac aacctcgtc 
aagttcgtg caggacaat gaagacgcc atcctggag 
gccctctac caggacttc aggaagccc aaacaggaa 
gtcgtctgc tacgagatc gtgccggtg gtcaaggag 
gccaaacat gccatcaac catctggaa gagtgggcc 
aagccagaa aaacccaaa aaatcgcta gttaatttg 
ctggatggg gtgatggtc tacaacgac ccctttggg 
gtggtgctc gtcatgggc gcctggaac tacccccta 
gccctggtg ctgatgcct gttattggc gccatagca 
gcgggcaat tgcgtcgta atcaagccc tcggacctc 
tcccctgcc acaagtcag ctcatgtac aaactactg 
cccaactat ttggacccc gagtgctac cctgtgtac 
cagggcgga gtcaaagaa acaaccgag ttgcttaaa 
gaaaagttc gattatatc ttctacaca ggctccacc 
tctgtgggc cagatcgtg cacaaggcg gccaatagg 
cacctcaca cctgtcacg ctggaactg ggcggcaaa 
agccccgcc tacattgac aactcggcc gatataacc 
aaaaccgtg aaacgtatt ttatgggga aaatgcata 
aactccggc cagacttgc atcgcccct gactatatt 
ctctgcact aaagaagtg caagacaag tttgtaaaa 
tacgccgaa aaggctctt ttggagttc tacggtagt 
gatattaag gatagcaat gattactct cgcattatc 
actgaccga catttcgaa agattggtt aatcttttg 
cccgggctt aagatcgca gttgggggg cgatatgag 
caaaaagac aggtttata gaacccaca attgccatt 
gacgtcaac cccaaccac gctataatg caggaagag 
attttcggc cccattttg cccatcatt cccataaat 
aacatcgac gaagctatc acttttatc aaccggagg 
aataaaccc ctagcgttg tatattttc tcaacgagg 
aaacaagac cgggaaaaa ctcctctcg aagacgtcc 
agtggcgga gtttgcgtc aacgatacc atccttcac 
gcctcggta gatgtctta cctttcggg ggcgttggg 
acgagtggg atgggatcg taccatggg aagaaaact 
tttgatacg ttcacgcac aagaagagt gttctagtt 
agggatttt caagccatt ccggagaaa atcatggct 
agtaggtac ccgccgtat tcgaattcg aaaatttcg 
ctcattcag atggcccta gaggagcgg aaaagggtc 
cctctgaag tatttgcca cattttgtg atgttttta 
ttaggggtg gggatcacg atcgcggtt tattttttg 
tacctgtat ttggaagtc taa
    mRNA sequence
    • >TC034107 RA
      cctccaagg taaactggc cgaaggcct gtgcgattg 
gttcgcaag tttcggtac agttccctc gcagatcgg 
tattatcta acagtagtt gcatccatg caatactac 
aaacacaca gctagaaag tgaacgcga gtgaaaatg 
tattcaaga accggcgaa acagtcgtg gacataaca 
acacctcca gacccggcg aaaatcgtc cacatcgcc 
agagaccgc ttcgaagag ggcaaaacc aagccgatt 
aaattccgg aagaagcag ctcaacaac ctcgtcaag 
ttcgtgcag gacaatgaa gacgccatc ctggaggcc 
ctctaccag gacttcagg aagcccaaa caggaagtc 
gtctgctac gagatcgtg ccggtggtc aaggaggcc 
aaacatgcc atcaaccat ctggaagag tgggccaag 
ccagaaaaa cccaaaaaa tcgctagtt aatttgctg 
gatggggtg atggtctac aacgacccc tttggggtg 
gtgctcgtc atgggcgcc tggaactac cccctagcc 
ctggtgctg atgcctgtt attggcgcc atagcagcg 
ggcaattgc gtcgtaatc aagccctcg gacctctcc 
cctgccaca agtcagctc atgtacaaa ctactgccc 
aactatttg gaccccgag tgctaccct gtgtaccag 
ggcggagtc aaagaaaca accgagttg cttaaagaa 
aagttcgat tatatcttc tacacaggc tccacctct 
gtgggccag atcgtgcac aaggcggcc aataggcac 
ctcacacct gtcacgctg gaactgggc ggcaaaagc 
cccgcctac attgacaac tcggccgat ataaccaaa 
accgtgaaa cgtatttta tggggaaaa tgcataaac 
tccggccag acttgcatc gcccctgac tatattctc 
tgcactaaa gaagtgcaa gacaagttt gtaaaatac 
gccgaaaag gctcttttg gagttctac ggtagtgat 
attaaggat agcaatgat tactctcgc attatcact 
gaccgacat ttcgaaaga ttggttaat cttttgccc 
gggcttaag atcgcagtt ggggggcga tatgagcaa 
aaagacagg tttatagaa cccacaatt gccattgac 
gtcaacccc aaccacgct ataatgcag gaagagatt 
ttcggcccc attttgccc atcattccc ataaataac 
atcgacgaa gctatcact tttatcaac cggaggaat 
aaaccccta gcgttgtat attttctca acgaggaaa 
caagaccgg gaaaaactc ctctcgaag acgtccagt 
ggcggagtt tgcgtcaac gataccatc cttcacgcc 
tcggtagat gtcttacct ttcgggggc gttgggacg 
agtgggatg ggatcgtac catgggaag aaaactttt 
gatacgttc acgcacaag aagagtgtt ctagttagg 
gattttcaa gccattccg gagaaaatc atggctagt 
aggtacccg ccgtattcg aattcgaaa atttcgctc 
attcagatg gccctagag gagcggaaa agggtccct 
ctgaagtat ttgccacat tttgtgatg tttttatta 
ggggtgggg atcacgatc gcggtttat tttttgtac 
ctgtatttg gaagtctaa tgtgatttt ggtgataag 
aggtgtcct aggttaagt tcaataaag attttttac 
actt

    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