Status
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Gene information
General information
TC032539
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.

TC003768 		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_007418.3: 17888353..17890124
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
    		TC032539
    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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    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02722

    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: 30.0% (includes death as pupa, adult)

    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: 1 (3 dpi)
    Days post injection

    adult lethality immediately after eclosion - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 40.0% (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 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC032539 RA
      MYFVTPGLI FTVIALWLL WSFLWKNFF ATKIKGPWA 
FPLIGSAYV LFGGTHNIL ENTVRVVSK YRPLCKLWL 
GNKLTIFPS NPDDIQMIL NRSLEKEEG YRYIKTVFG 
HGLFTSPVS EWKGHRKVI VSTLNQQVL NSFMDTYNI 
YTRELIEKL KIDTKDGQH IDMFPIMTQ CTLDIICSS 
IMGTQMNAM KEESQFIMW MTRVAELAI IRMFNIYLW 
PELFWKLSP ISKESHELD QKIYNYVKT VIHNKRHKG 
LKSHTGKKI FLDYLVELT DREGRWTDE ELTNETRSV 
IMAGSDATA LTLSYCLVM LAMFQDIQD KVYEELCSV 
FGDSDRFVT VDDLPHLQY LDRFIKETL RVFPVTSMI 
GRELTTDMT IDGHFIPKG TSIGFPILY IHRNPEYYP 
DPLKFDPDR FLPEEVAKR HPCTFIPFS FGPRNCIGY 
RYAMMTMKV ILATLLRSF KMVHTPYKE ISELKIKFD 
IATKVDEGY PVRMELRKN VAAGTK
    CDS sequence
    • >TC032539 RA
      atgtatttc gtaactccc ggtctcatt tttacggta 
atagcactt tggttgttg tggtcattc ttgtggaaa 
aattttttc gctacgaag atcaaagga ccatgggcc 
tttccgctc atcggaagc gcctacgtc ctgtttggc 
ggaacacac aatattttg gaaaatacg gtccgagtg 
gtcagcaag taccggccg ttgtgtaaa ctgtggttg 
ggcaataag ttgacgatt ttcccctcg aaccctgac 
gacatccag atgatcctc aacaggtct ttggagaag 
gaggagggt tataggtac atcaagact gtttttgga 
cacggcttg ttcactagt cccgtaagc gagtggaag 
gggcatcgg aaagtcatc gtttcgact ctcaaccag 
caagttttg aacagtttt atggacacg tacaatatt 
tacacgcgg gaattgatc gagaaactc aaaattgac 
accaaggac gggcagcat atcgatatg ttccccatt 
atgacccag tgcaccttg gatatcatc tgcagctcc 
atcatgggg acgcagatg aatgccatg aaggaggaa 
agtcagttt attatgtgg atgacaaga gtggccgag 
cttgcaatc attcgcatg ttcaacatc tacttgtgg 
ccagaactc ttctggaaa ctcagccca atctcgaaa 
gagtcgcac gagcttgac caaaaaatc tacaactat 
gtcaaaacg gttatacac aataagagg cacaagggg 
ttgaagtcg cacactggc aagaagatt ttcttggat 
tatttggtc gaattgacg gaccgggag ggccgatgg 
actgacgaa gaattgacc aatgaaacc aggagtgtg 
attatggca gggagtgat gccacagct ttgaccctt 
tcatattgt cttgtaatg ctggcgatg tttcaagac 
atacaagac aaggtgtac gaggaattg tgttcggtt 
ttcggtgac agtgaccgg ttcgtcacc gtcgacgat 
ttgccccat ttgcagtac ttggatcgc ttcattaaa 
gagactttg agggttttc ccagtcacc tcaatgatc 
ggtcgcgaa ttgaccaca gatatgacc atagatggg 
cattttata ccaaaaggt acttcaatt ggattcccc 
attttgtat attcacagg aaccctgaa tattacccc 
gacccgctc aaattcgac ccggatcgt ttcctgccg 
gaagaagtt gccaaaaga cacccttgt acttttatt 
ccgttcagt tttgggccg aggaattgc attggttat 
aggtacgcg atgatgacc atgaaagtg attcttgca 
actctgctt aggagtttc aaaatggtg cacaccccg 
tataaagaa atttcagaa ttgaaaatt aagtttgat 
attgccacc aaagtcgac gaagggtat ccggtgcga 
atggagctt cgcaaaaat gtggcagct ggcactaaa 
tag
    mRNA sequence
    • >TC032539 RA
      tcgaattag aactctaat aatgtattt cgtaactcc 
cggtctcat ttttacggt aatagcact ttggttgtt 
gtggtcatt cttgtggaa aaatttttt cgctacgaa 
gatcaaagg accatgggc ctttccgct catcggaag 
cgcctacgt cctgtttgg cggaacaca caatatttt 
ggaaaatac ggtccgagt ggtcagcaa gtaccggcc 
gttgtgtaa actgtggtt gggcaataa gttgacgat 
tttcccctc gaaccctga cgacatcca gatgatcct 
caacaggtc tttggagaa ggaggaggg ttataggta 
catcaagac tgtttttgg acacggctt gttcactag 
tcccgtaag cgagtggaa ggggcatcg gaaagtcat 
cgtttcgac tctcaacca gcaagtttt gaacagttt 
tatggacac gtacaatat ttacacgcg ggaattgat 
cgagaaact caaaattga caccaagga cgggcagca 
tatcgatat gttccccat tatgaccca gtgcacctt 
ggatatcat ctgcagctc catcatggg gacgcagat 
gaatgccat gaaggagga aagtcagtt tattatgtg 
gatgacaag agtggccga gcttgcaat cattcgcat 
gttcaacat ctacttgtg gccagaact cttctggaa 
actcagccc aatctcgaa agagtcgca cgagcttga 
ccaaaaaat ctacaacta tgtcaaaac ggttataca 
caataagag gcacaaggg gttgaagtc gcacactgg 
caagaagat tttcttgga ttatttggt cgaattgac 
ggaccggga gggccgatg gactgacga agaattgac 
caatgaaac caggagtgt gattatggc agggagtga 
tgccacagc tttgaccct ttcatattg tcttgtaat 
gctggcgat gtttcaaga catacaaga caaggtgta 
cgaggaatt gtgttcggt tttcggtga cagtgaccg 
gttcgtcac cgtcgacga tttgcccca tttgcagta 
cttggatcg cttcattaa agagacttt gagggtttt 
cccagtcac ctcaatgat cggtcgcga attgaccac 
agatatgac catagatgg gcattttat accaaaagg 
tacttcaat tggattccc cattttgta tattcacag 
gaaccctga atattaccc cgacccgct caaattcga 
cccggatcg tttcctgcc ggaagaagt tgccaaaag 
acacccttg tacttttat tccgttcag ttttgggcc 
gaggaattg cattggtta taggtacgc gatgatgac 
catgaaagt gattcttgc aactctgct taggagttt 
caaaatggt gcacacccc gtataaaga aatttcaga 
attgaaaat taagtttga tattgccac caaagtcga 
cgaagggta tccggtgcg aatggagct tcgcaaaaa 
tgtggcagc tggcactaa atagttgtg tagagttgg 
attttgatc agaaataaa cgatttcga gactc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY