Status
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Gene information
General information
TC015477 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: 9419431..9427123
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
    		TC015477
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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_05825

    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: 40.0% (includes death as pupa, adult)

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

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): less than 30%
    larval musculature irregular - Penetrance (percentage of animals/eggs on slide): 50% - 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
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva segment random decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment: Segment shape irregular. Appendages appear rounded.
    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: -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
    • >TC015477 RA
      MSGTNVKEF YAHDLVYKF DERKRIVFG VVSESYESS 
DSDETCALQ KGQILVTWS NPTRKRICR QSKVYLLCR 
CIAPGDIVR RLEDGKETQ RGYCKKTKQ FATVQIVES 
DKVIEHVPD SRLCFVKPF QVGDAVCLG DKFGRIQSI 
DEMIRMQSK CGSIVEVRR SINYNIRDY WFHSINGAY 
HEAEYPGQT VFCTPMHLR DPKWIKKSK SMMRKMEIG 
QKFTIQSIE ICLIEVWWY SPNGHTEYA ELKDDEIKR 
LKVLPYSEN LVMGDRYFL KLKPTDILL KKRDWIKKK 
SLQSLPHKV PKSDNSTLT NTCAEPFDA DDDWCTEED 
EESDNKGEI SIYGLHKIK QRKKTYPNL NKFSSGSIV 
AVQVFCADA RVTVVWQDG TEEKDIPTT ELYYSVSQD 
DHEFFPGEW VVSNSNENS DKYGVVQRV NFQERTAEI 
KWFSSVDAN QEPQELATN ESSVYDLKK HVKFVFRPG 
SVVKAKPTV EDKMGKVID SCPQGYVIV QWLGGKREN 
CWPQNIELI LESEDFEFP DAFDSDDDL SEDAYSWET 
ESVESFDGD VTDEINLQN MAARVDFIR NRISYLREA 
FKHYNITQN FHFVKDLLC IYDNSGYLD KYLGTSFFS 
TESKHFQAL LLETKKKAK SLGIELRGR MFSRENLSC 
PTKMKNAEK DNIQKMIKL ESKVNVQIE MCKECSGES 
CPTTPDSSE PAEKPQENL CVELLVMLK MRMDLIYAE 
IISRIGGRQ ALTVLTNSS ENPLKPSPS TTTALQNAL 
LTPETPPKV AKPIELIPK NEAFSILEE APDTHRYFS 
SKFVPKDLQ KFLVALQKE YKLLKDSLP AGVWVRTYD 
NRMDLLSVM IRGPAKTPY EDGLFLFDI QLSPDYPKN 
PPGVHYISY ITEPLNPNL YVEGKVCVS LLGTWMGRG 
SEMWGPNST LLQLIVSIQ GLILVAQPY FNEAGYERQ 
THTQQGCEN SRTYNEFVI LKLVQSMTE LLNAAPKVF 
QNEVLAHFQ AKGEAMCER LMKYCDEEP LVPEFPLLP 
VSKGFKLSL GSALNGFRQ ALKKALEGR NKEALL
    CDS sequence
    • >TC015477 RA
      atgtccgga acaaacgta aaagaattc tacgctcac 
gatcttgtc tacaaattc gacgaacgc aagcgaatt 
gtgtttggg gtagtgagt gagagctat gagagctcg 
gacagtgac gagacctgt gccctccag aagggccag 
atcctcgtc acttggagc aaccccacc cggaagcgg 
atatgcaga cagagcaag gtgtatctg ctgtgccgc 
tgcatcgcc ccgggggac attgtgcgg cggctggag 
gacgggaag gagacccag aggggctac tgcaagaag 
accaagcag ttcgccaca gtccaaatc gtggagagc 
gacaaagtc atcgagcat gttcccgac agcaggttg 
tgttttgtt aagccgttc caggtgggg gatgctgtg 
tgtctgggg gacaagttc gggagaatt cagagcata 
gacgagatg attaggatg cagtcgaag tgtggttct 
attgttgaa gttaggaga agtatcaat tataatatt 
agggattat tggtttcat tccataaat ggggcctat 
cacgaagcc gagtacccg ggacagact gttttttgt 
acaccaatg catttacga gacccaaag tggataaaa 
aaatcaaaa tcgatgatg cgcaagatg gaaatcggc 
caaaagttc accattcaa agcattgaa atttgcctg 
atcgaagta tggtggtac tccccgaac ggccacacg 
gaatacgcc gagctcaag gacgacgaa attaaacga 
ctgaaagtc ctcccgtac tccgagaat ttggtaatg 
ggcgatcgc tacttctta aaactaaaa ccgaccgac 
attttgctt aaaaaacgc gactggatc aagaaaaaa 
tcgctgcaa tctctccct cacaaagtg cctaaatcg 
gacaattcc acgctgacg aacacttgc gccgaaccg 
ttcgacgcc gacgacgac tggtgcaca gaagaagac 
gaggaatcg gacaataaa ggcgaaatt tccatatac 
ggcttgcat aaaattaaa cagaggaaa aaaacctat 
cccaatttg aacaaattc tcctcgggc tcgatcgtc 
gcggtccag gttttttgt gccgatgcg cgagtcaca 
gttgtgtgg caggacggc actgaggag aaggatatc 
ccgacaacg gaactctat tattccgtt tcgcaggac 
gatcacgaa ttttttcca ggggagtgg gtggtgtcc 
aactcgaac gaaaactcg gacaagtac ggcgtggtc 
cagagggtc aatttccaa gaacggacg gctgaaatt 
aagtggttt tcgagcgtg gacgccaac caggagccg 
caggaattg gcaacgaac gagtcaagc gtctacgat 
ttgaaaaag cacgtcaag ttcgtgttc cgtccaggt 
agtgtagtt aaggccaag ccgaccgtc gaggacaag 
atgggcaaa gtcatagat agttgtcca caaggctac 
gtgattgtg cagtggctc ggtggtaag agagaaaat 
tgttggccg caaaacatc gaattgata ctcgagagt 
gaagatttc gaatttccg gatgccttt gacagcgat 
gacgatctt agtgaagat gcgtactcg tgggaaacc 
gaaagtgtg gagtcgttc gacggcgac gttaccgat 
gaaattaat ttacaaaat atggccgcc agagttgat 
tttattagg aacaggatt agttatctg agggaggcc 
tttaagcac tacaacatc acgcagaat tttcatttt 
gttaaagat ttgttgtgc atttatgac aattcgggt 
tatttagat aagtatctc ggcacgtcg ttttttagc 
acggaaagt aaacatttc caggcgttg ctgcttgaa 
actaagaaa aaagccaag tctctagga atcgaattg 
aggggtagg atgttttct cgggaaaat ctttcctgt 
ccaacaaaa atgaaaaat gccgagaaa gacaatata 
cagaaaatg atcaagttg gagagtaag gtcaatgtg 
cagatcgag atgtgcaaa gaatgcagc ggagaatca 
tgtcctaca acccccgac agctccgag ccggccgaa 
aaaccccaa gagaacctg tgcgtggaa ctcctcgtg 
atgctcaaa atgcgcatg gatttaatc tacgcggaa 
ataatcagt cgcataggc ggccgtcaa gcgttaacc 
gtcctaaca aactcatcc gaaaacccg ttaaaacca 
tcgccaagc accaccacc gccttacaa aacgcactt 
ttaaccccc gaaacgccc ccgaaagtg gccaaaccg 
atcgaactc atccccaaa aacgaagcc ttctccatt 
ctggaggaa gcccctgac acccatcgc tatttctcg 
agcaaattc gtaccaaaa gacttgcaa aaatttcta 
gtcgcgctc caaaaagag tacaagttg cttaaagac 
tccctaccg gcaggggtt tgggtccgg acttacgac 
aaccggatg gacctctta tcagtgatg ataagaggc 
ccggcgaag actccgtac gaggacggg ttgttcctt 
ttcgatatt cagttaagt ccggactac cccaagaac 
cccccgggt gtccattac atcagttac atcacggag 
cccctgaac ccgaacctg tacgttgag ggcaaagtt 
tgcgtgtct ttgctgggg acgtggatg gggcgcggg 
agcgaaatg tgggggcct aacagcacc ctcctgcag 
ctaattgtg tcaattcag gggcttatc ctcgtagcg 
cagccctat tttaacgaa gctggctac gaacgacag 
acgcacacg cagcaaggg tgcgaaaac tcgcgcact 
tataacgaa tttgttatt ttgaaactt gttcagtcg 
atgactgag ttgctcaac gccgcacct aaagtattt 
cagaacgag gtcctcgcg cattttcag gccaaaggc 
gaggcgatg tgcgaaaga ttgatgaaa tactgcgac 
gaggaacca cttgtacct gaattcccg ctcttgccc 
gtcagtaaa gggttcaaa ctgtcgctg ggctcggcc 
ctaaacggg ttccgacag gcgctgaag aaggccctg 
gaagggagg aataaagag gcgcttttg taa
    mRNA sequence
    • >TC015477 RA
      ttttgttta taacctgtc atgcgcgtg acgaaaacg 
tcaaaaacc caatcgcat tggccattt taaacattt 
ttctcctca gtttcaaaa tcgtagtgt agtttcaac 
tcgtatcgt aaaaagcaa aaaatgtcc ggaacaaac 
gtaaaagaa ttctacgct cacgatctt gtctacaaa 
ttcgacgaa cgcaagcga attgtgttt ggggtagtg 
agtgagagc tatgagagc tcggacagt gacgagacc 
tgtgccctc cagaagggc cagatcctc gtcacttgg 
agcaacccc acccggaag cggatatgc agacagagc 
aaggtgtat ctgctgtgc cgctgcatc gccccgggg 
gacattgtg cggcggctg gaggacggg aaggagacc 
cagaggggc tactgcaag aagaccaag cagttcgcc 
acagtccaa atcgtggag agcgacaaa gtcatcgag 
catgttccc gacagcagg ttgtgtttt gttaagccg 
ttccaggtg ggggatgct gtgtgtctg ggggacaag 
ttcgggaga attcagagc atagacgag atgattagg 
atgcagtcg aagtgtggt tctattgtt gaagttagg 
agaagtatc aattataat attagggat tattggttt 
cattccata aatggggcc tatcacgaa gccgagtac 
ccgggacag actgttttt tgtacacca atgcattta 
cgagaccca aagtggata aaaaaatca aaatcgatg 
atgcgcaag atggaaatc ggccaaaag ttcaccatt 
caaagcatt gaaatttgc ctgatcgaa gtatggtgg 
tactccccg aacggccac acggaatac gccgagctc 
aaggacgac gaaattaaa cgactgaaa gtcctcccg 
tactccgag aatttggta atgggcgat cgctacttc 
ttaaaacta aaaccgacc gacattttg cttaaaaaa 
cgcgactgg atcaagaaa aaatcgctg caatctctc 
cctcacaaa gtgcctaaa tcggacaat tccacgctg 
acgaacact tgcgccgaa ccgttcgac gccgacgac 
gactggtgc acagaagaa gacgaggaa tcggacaat 
aaaggcgaa atttccata tacggcttg cataaaatt 
aaacagagg aaaaaaacc tatcccaat ttgaacaaa 
ttctcctcg ggctcgatc gtcgcggtc caggttttt 
tgtgccgat gcgcgagtc acagttgtg tggcaggac 
ggcactgag gagaaggat atcccgaca acggaactc 
tattattcc gtttcgcag gacgatcac gaatttttt 
ccaggggag tgggtggtg tccaactcg aacgaaaac 
tcggacaag tacggcgtg gtccagagg gtcaatttc 
caagaacgg acggctgaa attaagtgg ttttcgagc 
gtggacgcc aaccaggag ccgcaggaa ttggcaacg 
aacgagtca agcgtctac gatttgaaa aagcacgtc 
aagttcgtg ttccgtcca ggtagtgta gttaaggcc 
aagccgacc gtcgaggac aagatgggc aaagtcata 
gatagttgt ccacaaggc tacgtgatt gtgcagtgg 
ctcggtggt aagagagaa aattgttgg ccgcaaaac 
atcgaattg atactcgag agtgaagat ttcgaattt 
ccggatgcc tttgacagc gatgacgat cttagtgaa 
gatgcgtac tcgtgggaa accgaaagt gtggagtcg 
ttcgacggc gacgttacc gatgaaatt aatttacaa 
aatatggcc gccagagtt gattttatt aggaacagg 
attagttat ctgagggag gcctttaag cactacaac 
atcacgcag aattttcat tttgttaaa gatttgttg 
tgcatttat gacaattcg ggttattta gataagtat 
ctcggcacg tcgtttttt agcacggaa agtaaacat 
ttccaggcg ttgctgctt gaaactaag aaaaaagcc 
aagtctcta ggaatcgaa ttgaggggt aggatgttt 
tctcgggaa aatctttcc tgtccaaca aaaatgaaa 
aatgccgag aaagacaat atacagaaa atgatcaag 
ttggagagt aaggtcaat gtgcagatc gagatgtgc 
aaagaatgc agcggagaa tcatgtcct acaaccccc 
gacagctcc gagccggcc gaaaaaccc caagagaac 
ctgtgcgtg gaactcctc gtgatgctc aaaatgcgc 
atggattta atctacgcg gaaataatc agtcgcata 
ggcggccgt caagcgtta accgtccta acaaactca 
tccgaaaac ccgttaaaa ccatcgcca agcaccacc 
accgcctta caaaacgca cttttaacc cccgaaacg 
cccccgaaa gtggccaaa ccgatcgaa ctcatcccc 
aaaaacgaa gccttctcc attctggag gaagcccct 
gacacccat cgctatttc tcgagcaaa ttcgtacca 
aaagacttg caaaaattt ctagtcgcg ctccaaaaa 
gagtacaag ttgcttaaa gactcccta ccggcaggg 
gtttgggtc cggacttac gacaaccgg atggacctc 
ttatcagtg atgataaga ggcccggcg aagactccg 
tacgaggac gggttgttc cttttcgat attcagtta 
agtccggac taccccaag aaccccccg ggtgtccat 
tacatcagt tacatcacg gagcccctg aacccgaac 
ctgtacgtt gagggcaaa gtttgcgtg tctttgctg 
gggacgtgg atggggcgc gggagcgaa atgtggggg 
cctaacagc accctcctg cagctaatt gtgtcaatt 
caggggctt atcctcgta gcgcagccc tattttaac 
gaagctggc tacgaacga cagacgcac acgcagcaa 
gggtgcgaa aactcgcgc acttataac gaatttgtt 
attttgaaa cttgttcag tcgatgact gagttgctc 
aacgccgca cctaaagta tttcagaac gaggtcctc 
gcgcatttt caggccaaa ggcgaggcg atgtgcgaa 
agattgatg aaatactgc gacgaggaa ccacttgta 
cctgaattc ccgctcttg cccgtcagt aaagggttc 
aaactgtcg ctgggctcg gccctaaac gggttccga 
caggcgctg aagaaggcc ctggaaggg aggaataaa 
gaggcgctt ttgtaacgt tgttacctt gttatcctg 
ttctaaacc ttgttaata aaacgtttc gttattttt 
ggtgatatt tttatgtag gtgtagtat tacagttgt 
tttgtttcg ttggaattt atttagttc gaatacctc 
tttgtgatt tttctgtga ttgctgcgc tgtttctta 
cggtagtat taacgtaat ttaagcaat attgtaatt 
ttttacgta tcaggaaca tgccaatgg gtcgatagg 
tcaatcaag aacaaatca ggagaatca ctcaatcta 
ggattttca agtgcattt ctagacatt aaataaacg 
ctacgtttc aag

    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