Status
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Gene information
General information
TC006352 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: 7748537..7753272
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
    		TC006352
    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
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    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_01036

    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: 100.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    Fertility
    tropharium partially degenerated - Number of animals showing the phenotype: 2

    egg chamber number decreased - Number of animals showing the phenotype: 2
    egg chamber sometimes segmentation/division not present - Number of animals showing the phenotype: 2
    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: 90.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006352 RA
      MEYFRSGLK SVLGAPAPG TQPTGAETV ERLVSRVST 
STLLEDRRD ACRALKALS RKYRLEVGA QGMDVLRQV 
LELDRSDCE IIGYCLDTL CNITSKEVF EEESESNLN 
IKVNVGEQF TEMFIKNAE NVTLVLSFL EEYDFRVRW 
PAVKLLTSL LASKPKEIQ DVILVSPMG VSKLMDLLV 
ESREVIRND ALLLLINLT KSNANIQKI VAFENAFDR 
LFDVIREEG FTDGGIVVE DCMLLMLNL LKNNTSNIN 
FFKEGSYIQ KLAPMFILP DNLEEVGWS PQKVSNMHC 
VLQLVRTLV SPTNPVQIV TSCQKTMRN ANLLEALCN 
ILMASGVPA DILTETINT VGEVIRGNL TNQEYFAGV 
MAPSNPPRP AIVVLLMSM VNEKQPFTL RCAVLYCFQ 
CFLFKNEIG QEQVVQTLL PSSTNSTLT TGQLLCGGL 
FSADSLSCW FSSVALSHT LIENPAQRE QLLRVLLAT 
NLGSQPVSL LHQCAVFLQ QTTKLQAKI GILMLLAMW 
MSHCPQAVQ VFLNVPGAM AFLTAQTSA SEFDNNEEI 
LQGLCAFLM GLCVAFNDN SVQNYSKEN LSQLIEKRV 
GTETYCTKL GEISRHEVY AKAAKQPQI RAKHSSELL 
LEFEFCKLF KALEPVIIK ALGVQRDLS NGMSELSLS 
EHENALLLQ YKELIRDQD KKLQDVHKS LSNLQRENQ 
DLKGQIEEL RQTNSQLHD QNTLLKAQM QLSGTAVAE 
PGNDKVKQL EAELVEKDA ELERLRKDQ DDLLELLTD 
QDTKLNAFK NRLKELGET VEDGDSEDN SAGSDNEV
    CDS sequence
    • >TC006352 RA
      atggagtac ttccggagc ggtttgaag tcggtgctg 
ggggccccg gcccccggc acccagccc acgggtgcc 
gagaccgtg gagcggctt gtgagtcgg gtcagtact 
tcgacgtta ctggaggac cgtcgcgac gcatgtcgg 
gcccttaag gccctgtct cggaaatat cgcctcgaa 
gtgggggcc caaggcatg gatgtgttg agacaggtc 
ctggagttg gaccgctct gactgcgaa atcatcggc 
tattgtctc gatacgttg tgtaatatc acctcgaag 
gaggttttt gaggaggag agtgagagt aatttgaac 
attaaggtc aatgtgggg gagcagttc accgaaatg 
tttatcaaa aatgccgaa aatgtgacc ctggttttg 
agttttttg gaggagtac gactttagg gttagatgg 
ccagctgtc aagctgctc acttcactt ctggcaagt 
aaacctaaa gaaatccaa gacgtgatc ctcgtgagc 
cccatgggg gtttcaaaa cttatggat ttgttggtc 
gaaagtcgc gaagtgatc cggaacgac gctttgctt 
cttttgatt aacttgaca aaatcaaac gccaacatc 
caaaaaatt gtggctttt gaaaacgcc ttcgaccga 
ttgtttgat gttatacgg gaagagggt tttacagat 
gggggcatt gtggttgag gattgcatg ctactgatg 
ctcaacctc ctcaaaaat aacacaagc aacatcaat 
tttttcaaa gaaggatca tacatacag aagttagcc 
cccatgttt atcctcccg gacaacttg gaggaagtt 
gggtggagc ccccagaaa gtgtcaaac atgcattgc 
gtcctgcaa ttggtcagg actctagtc tcgcccaca 
aacccagtc cagattgtc acttcgtgc caaaagaca 
atgcgaaat gccaattta cttgaagcc ctttgtaat 
attttaatg gcaagtggg gtccccgcc gatatttta 
accgagact attaacaca gtgggcgag gtaataagg 
ggcaatttg accaatcag gagtacttt gcgggtgtc 
atggcgcct tcaaacccc ccacgaccc gccatagta 
gtactacta atgtccatg gtcaacgaa aagcaaccc 
tttacccta cgttgcgct gttttgtat tgcttccaa 
tgtttcctc ttcaaaaac gagattggc caggaacaa 
gtggtccaa accctcctc cctagctcc accaactcg 
actctaacc accgggcaa ctcctctgt gggggtctg 
ttcagtgca gactccctc agttgctgg ttcagttcg 
gtggctcta agtcacacc ctgatcgaa aaccccgct 
cagagagaa caactcctg agagtcctc cttgccaca 
aaccttggc tcccaaccc gtcagcctc ctgcaccaa 
tgtgccgtt ttcctccaa caaaccacc aaactccag 
gccaaaatc ggtattctg atgctgtta gccatgtgg 
atgagtcac tgtccccaa gccgttcaa gtcttcctg 
aacgtgcca ggggctatg gccttcctc acagcgcag 
acaagcgcc agcgaattc gacaataac gaggaaata 
ttgcaaggt ctatgcgcg tttttgatg ggtctctgc 
gttgccttt aacgataac tcggtccaa aactactcg 
aaagaaaac ttgtctcaa ctaattgag aagcgagtg 
gggactgag acgtattgt acgaaactg ggggagatt 
tcgagacat gaagtgtac gccaaagcg gcaaaacaa 
ccccaaatt cgggccaaa cattccagt gagttgcta 
ctagagttt gagttttgt aagctcttc aaggcgcta 
gagcctgtc attattaag gctttgggg gtgcaaagg 
gacttgtcc aatgggatg tccgaactg agtttgagt 
gaacacgaa aatgcctta ctgttgcaa tacaaagaa 
ttgataagg gaccaagac aagaagttg caagatgtg 
cataaaagc ttgagtaac ttgcaacgg gagaatcag 
gatttgaag ggacagatt gaggagttg cgtcagacc 
aactcacag ctccatgac caaaacacg ttacttaag 
gctcagatg cagttgtcg ggaacggca gtggctgag 
cctggtaat gacaaagtc aagcaactc gaagctgag 
ttggttgaa aaagacgca gagttggag aggttgagg 
aaggatcag gatgatttg ttggagttg ttgacggat 
caagacacc aagctaaat gcatttaaa aataggttg 
aaagagttg ggtgaaact gttgaagat ggcgattct 
gaggataac tcggcgggg tctgataat gaggtgtaa
    mRNA sequence
    • >TC006352 RA
      ctgcgctat tgacgtttc tttgtatac atgtcacgt 
caaaatgtc aaaaatttc aaacaattt gtgttaatt 
tcgtgaaat ggagtactt ccggagcgg tttgaagtc 
ggtgctggg ggccccggc ccccggcac ccagcccac 
gggtgccga gaccgtgga gcggcttgt gagtcgggt 
cagtacttc gacgttact ggaggaccg tcgcgacgc 
atgtcgggc ccttaaggc cctgtctcg gaaatatcg 
cctcgaagt gggggccca aggcatgga tgtgttgag 
acaggtcct ggagttgga ccgctctga ctgcgaaat 
catcggcta ttgtctcga tacgttgtg taatatcac 
ctcgaagga ggtttttga ggaggagag tgagagtaa 
tttgaacat taaggtcaa tgtggggga gcagttcac 
cgaaatgtt tatcaaaaa tgccgaaaa tgtgaccct 
ggttttgag ttttttgga ggagtacga ctttagggt 
tagatggcc agctgtcaa gctgctcac ttcacttct 
ggcaagtaa acctaaaga aatccaaga cgtgatcct 
cgtgagccc catgggggt ttcaaaact tatggattt 
gttggtcga aagtcgcga agtgatccg gaacgacgc 
tttgcttct tttgattaa cttgacaaa atcaaacgc 
caacatcca aaaaattgt ggcttttga aaacgcctt 
cgaccgatt gtttgatgt tatacggga agagggttt 
tacagatgg gggcattgt ggttgagga ttgcatgct 
actgatgct caacctcct caaaaataa cacaagcaa 
catcaattt tttcaaaga aggatcata catacagaa 
gttagcccc catgtttat cctcccgga caacttgga 
ggaagttgg gtggagccc ccagaaagt gtcaaacat 
gcattgcgt cctgcaatt ggtcaggac tctagtctc 
gcccacaaa cccagtcca gattgtcac ttcgtgcca 
aaagacaat gcgaaatgc caatttact tgaagccct 
ttgtaatat tttaatggc aagtggggt ccccgccga 
tattttaac cgagactat taacacagt gggcgaggt 
aataagggg caatttgac caatcagga gtactttgc 
gggtgtcat ggcgccttc aaacccccc acgacccgc 
catagtagt actactaat gtccatggt caacgaaaa 
gcaaccctt taccctacg ttgcgctgt tttgtattg 
cttccaatg tttcctctt caaaaacga gattggcca 
ggaacaagt ggtccaaac cctcctccc tagctccac 
caactcgac tctaaccac cgggcaact cctctgtgg 
gggtctgtt cagtgcaga ctccctcag ttgctggtt 
cagttcggt ggctctaag tcacaccct gatcgaaaa 
ccccgctca gagagaaca actcctgag agtcctcct 
tgccacaaa ccttggctc ccaacccgt cagcctcct 
gcaccaatg tgccgtttt cctccaaca aaccaccaa 
actccaggc caaaatcgg tattctgat gctgttagc 
catgtggat gagtcactg tccccaagc cgttcaagt 
cttcctgaa cgtgccagg ggctatggc cttcctcac 
agcgcagac aagcgccag cgaattcga caataacga 
ggaaatatt gcaaggtct atgcgcgtt tttgatggg 
tctctgcgt tgcctttaa cgataactc ggtccaaaa 
ctactcgaa agaaaactt gtctcaact aattgagaa 
gcgagtggg gactgagac gtattgtac gaaactggg 
ggagatttc gagacatga agtgtacgc caaagcggc 
aaaacaacc ccaaattcg ggccaaaca ttccagtga 
gttgctact agagtttga gttttgtaa gctcttcaa 
ggcgctaga gcctgtcat tattaaggc tttgggggt 
gcaaaggga cttgtccaa tgggatgtc cgaactgag 
tttgagtga acacgaaaa tgccttact gttgcaata 
caaagaatt gataaggga ccaagacaa gaagttgca 
agatgtgca taaaagctt gagtaactt gcaacggga 
gaatcagga tttgaaggg acagattga ggagttgcg 
tcagaccaa ctcacagct ccatgacca aaacacgtt 
acttaaggc tcagatgca gttgtcggg aacggcagt 
ggctgagcc tggtaatga caaagtcaa gcaactcga 
agctgagtt ggttgaaaa agacgcaga gttggagag 
gttgaggaa ggatcagga tgatttgtt ggagttgtt 
gacggatca agacaccaa gctaaatgc atttaaaaa 
taggttgaa agagttggg tgaaactgt tgaagatgg 
cgattctga ggataactc ggcggggtc tgataatga 
ggtgtaaat agttttagg tgcaattat ttattgatt 
aataaaaga ctacacttt ta

    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