Status
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Gene information
General information
TC006533 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: 11111063..11113738
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
    		TC006533
    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 *
    {{ 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
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    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_04165

    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

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: - Number of animals showing the phenotype: 4
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 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): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     larva complete everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    larva cuticle dorsal not closed - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen partially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 80.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 80.0% (includes death as larva, prepupa, pupa, adult)

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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006533 RA
      MCCSNPAFY ISVYVLAVN LFGLYLRFV YFHNYFECF 
ACRELDFKD QAYDYIVVG SGSAGSIVA RRLAENPSV 
KVLLIEAGA SGNGILQIP TVSLMLQDS VFDWQYRTV 
PQKHACLGL DKKVSHWPM GKILGGTAM LNNMIYVRG 
HPQDFAEWY KDSCNFNYT IDVLPYFKK LESNETNKH 
KCSVFVEDM PFKSNLSDY FLQAGLCLG FGLSDGVNS 
EPGFSATKV TMRNGQRWT PYHQLEKTK KRNLVVITN 
SLVEKVLLK SNYEAYGVK YTHLDETYY VRATKGVIL 
SAGVIGSPK ILMLSGIGP KKHLEKLKI APRLDLPVG 
ENLQDHVTT GLDLITLEA PPDMGLQQM LSPWSASRY 
FLWGEGPWT SPGCESVGF FNSEDEKIP ELQFMILPY 
GAAIDGGSY LRGLVGIGE RLWEGYFRR VNGSTMTVL 
PVVLHPKSR GTVRLKSKD PRTPPLIDP NYLAEGYDV 
DILLEGIEL VKEFLETPP MRRLGAKLN AVKFPGCEG 
LEFDTRPYW VCYVRHFTL SSYHPVGTC ALGRVIDEG 
FQVKGTNKL YVVDGSVLP SLPSGNPQG AIMMMAERA 
AEIIKHHCW LSQRRCCSS DVFQDQCSC Y
    CDS sequence
    • >TC006533 RA
      atgtgttgc tccaaccct gcgttctac ataagtgtc 
tacgttctc gctgttaat ctattcggg ctatacctt 
agatttgtg tactttcac aactacttt gagtgcttc 
gcttgtcga gagctggat ttcaaggac caggcctac 
gattacatt gtagtcggg agcggctca gctggaagc 
atcgtcgct cgaagactc gccgaaaac cccagcgtt 
aaagttttg ctaattgaa gctggggct agcggaaat 
ggcattttg caaatcccg actgttagt ctcatgcta 
caagactcg gtttttgac tggcagtac cgaacggtg 
ccccagaaa catgcctgt ttggggctt gacaaaaaa 
gtaagtcat tggcccatg gggaagatt ctggggggc 
acggcgatg ttaaataac atgatttac gtccgggga 
cacccccaa gacttcgcc gagtggtat aaagattct 
tgtaatttc aactacacg atcgacgtt cttccctac 
ttcaaaaaa ctggaaagc aacgaaact aacaagcac 
aaatgttca gttttcgtg gaggatatg ccgtttaag 
tcgaacttg tcggattat tttttgcaa gccgggttg 
tgtctcggc tttggccta tcagacggg gtgaactca 
gagcctggt ttttcggcc actaaagta acaatgcgt 
aacggccag cgctggacg ccttaccac caattagaa 
aaaaccaaa aaacgcaat ctagtcgtc ataactaac 
tctctagtc gaaaaagtc ctcttaaaa tccaactac 
gaggcctac ggtgtgaaa tacacccac ttggacgaa 
acctactac gtccgtgcc accaagggt gtgattcta 
tcggccggc gtgatcggc tccccaaaa atcctcatg 
ttatcgggc attggcccc aaaaaacac ttggagaaa 
ttaaaaata gcccccaga cttgaccta ccagtcggc 
gagaacttg caagaccac gtaaccacc ggactggac 
ctcatcacg ctggaagcg ccccccgac atgggcctg 
cagcaaatg ctgtcgccg tggagcgct agcaggtat 
tttctgtgg ggggagggc ccctggacc agtccaggg 
tgcgagagt gtcgggttt ttcaacagc gaggacgag 
aaaatcccc gagttgcag ttcatgatt ctgccgtat 
ggggccgcc attgacggg ggctcctac ttaaggggg 
ctggtggga atcggggag agactctgg gaggggtat 
tttcggcga gtgaacggc tcgactatg accgtgctc 
ccggttgtt ttgcacccg aaaagtcgg gggaccgtg 
aggctcaaa agtaaagac cccagaacg ccgcctttg 
attgacccg aattatttg gcggagggg tacgatgtt 
gatattctt ttggagggg attgagctg gttaaggag 
tttttggaa acgccgcca atgcgccgc ctgggggct 
aagctgaac gcggtcaag ttccccggt tgtgagggg 
cttgagttt gacactaga ccctactgg gtgtgttat 
gtccgccat tttacgtta tcaagttac caccctgtt 
ggtacgtgc gctttgggg cgcgtgatt gacgagggg 
tttcaagtc aaaggcacc aataaattg tacgttgtt 
gacgggtcg gttttgccc agcttgccc agcggtaac 
ccccagggg gctatcatg atgatggcg gagcgcgcg 
gctgagata atcaagcac cactgctgg ttgagtcag 
aggcggtgc tgctcgtcc gacgtgttc caagaccag 
tgcagctgt tactaa
    mRNA sequence
    • >TC006533 RA
      tgcatcaaa tcaattagt acaaatcaa acattacgc 
gtgtttttc agcaataaa taacccaga caaatttaa 
ataaacttc ttgacaggt ggtttagtt gtaacctca 
cttctattt ggcataacc tcacttttg acaattttc 
ggccttctt tttttcaaa atttccgtg taaaattga 
attaaacat aatgtgttg ctccaaccc tgcgttcta 
cataagtgt ctacgttct cgctgttaa tctattcgg 
gctatacct tagatttgt gtactttca caactactt 
tgagtgctt cgcttgtcg agagctgga tttcaagga 
ccaggccta cgattacat tgtagtcgg gagcggctc 
agctggaag catcgtcgc tcgaagact cgccgaaaa 
ccccagcgt taaagtttt gctaattga agctggggc 
tagcggaaa tggcatttt gcaaatccc gactgttag 
tctcatgct acaagactc ggtttttga ctggcagta 
ccgaacggt gccccagaa acatgcctg tttggggct 
tgacaaaaa agtaagtca ttggcccat ggggaagat 
tctgggggg cacggcgat gttaaataa catgattta 
cgtccgggg acaccccca agacttcgc cgagtggta 
taaagattc ttgtaattt caactacac gatcgacgt 
tcttcccta cttcaaaaa actggaaag caacgaaac 
taacaagca caaatgttc agttttcgt ggaggatat 
gccgtttaa gtcgaactt gtcggatta ttttttgca 
agccgggtt gtgtctcgg ctttggcct atcagacgg 
ggtgaactc agagcctgg tttttcggc cactaaagt 
aacaatgcg taacggcca gcgctggac gccttacca 
ccaattaga aaaaaccaa aaaacgcaa tctagtcgt 
cataactaa ctctctagt cgaaaaagt cctcttaaa 
atccaacta cgaggccta cggtgtgaa atacaccca 
cttggacga aacctacta cgtccgtgc caccaaggg 
tgtgattct atcggccgg cgtgatcgg ctccccaaa 
aatcctcat gttatcggg cattggccc caaaaaaca 
cttggagaa attaaaaat agcccccag acttgacct 
accagtcgg cgagaactt gcaagacca cgtaaccac 
cggactgga cctcatcac gctggaagc gccccccga 
catgggcct gcagcaaat gctgtcgcc gtggagcgc 
tagcaggta ttttctgtg gggggaggg cccctggac 
cagtccagg gtgcgagag tgtcgggtt tttcaacag 
cgaggacga gaaaatccc cgagttgca gttcatgat 
tctgccgta tggggccgc cattgacgg gggctccta 
cttaagggg gctggtggg aatcgggga gagactctg 
ggaggggta ttttcggcg agtgaacgg ctcgactat 
gaccgtgct cccggttgt tttgcaccc gaaaagtcg 
ggggaccgt gaggctcaa aagtaaaga ccccagaac 
gccgccttt gattgaccc gaattattt ggcggaggg 
gtacgatgt tgatattct tttggaggg gattgagct 
ggttaagga gtttttgga aacgccgcc aatgcgccg 
cctgggggc taagctgaa cgcggtcaa gttccccgg 
ttgtgaggg gcttgagtt tgacactag accctactg 
ggtgtgtta tgtccgcca ttttacgtt atcaagtta 
ccaccctgt tggtacgtg cgctttggg gcgcgtgat 
tgacgaggg gtttcaagt caaaggcac caataaatt 
gtacgttgt tgacgggtc ggttttgcc cagcttgcc 
cagcggtaa cccccaggg ggctatcat gatgatggc 
ggagcgcgc ggctgagat aatcaagca ccactgctg 
gttgagtca gaggcggtg ctgctcgtc cgacgtgtt 
ccaagacca gtgcagctg ttactaatt gtaataatc 
ggtggtttt atttaaact acaccatac agttcactt 
ctatttgaa tggtagagt acaatcata ttgctgcgt 
ttgagcaaa ctgtgtaaa attacaaat attgcaaaa 
gactagaat acagttttt acagtttg

    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