Status
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Gene information
General information
TC015632 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_007421.3: 3754236..3757983
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
    		TC015632
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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_02499

    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: 50.0% (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: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae - 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: 44.44% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

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

    pupal molt not fulfilled (died with pupal and larval features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015632 RA
      MFPELPPIY WCLALTRII LVLIPQLGY IHPDEFFQS 
IEVQAGKAF HVESNIPWE YNATFPVRS VTIPYFTIG 
MVYKLANVA EYFLKQYST LSIITPYLV VVGPRFLMC 
ALSFLVDLI LYKICVNNN EKYKNRLVV LASSYVVLV 
YGTRTFSNT FELVLFALL QYYVCESLV FSNTLIKKR 
EYLNYRYER SRTVVEKAK FHKLRLLLT SDSLRNCVQ 
ISVITVLGF FNRPTFLAF AMFPVFFWL YRGLGNKLV 
APMNYHLRI LALIVCSIP TILLSVLID SFYYGYITW 
GEVGVLHVT IDNFVFTPL NFILYNMDS GNLAEHGLH 
PRFLHVLVN MPLLFGLLA LFAYYNFCQ AVYNLVTGR 
HHLLPTVRS IKGLMMLSY LGPLTILSI FPHQEPRFL 
IPLILPLVY LSTNSVFPE SDNILIKLE ASTLKNRAP 
EMAKSPTTF LKLWLVVNL ILVLFFGFL HQGGVYRSG 
EFLYKDMKR HSRTDFYVV TSHIYSMPK SLVLQKSSD 
VLHHTKRTK YTVNKRFFL YEKGSSDLD LVVKDLQIL 
RGKLQDYRW NFKSKKYKL ILIIPSSLE DRLSYSANS 
QFEFKLVTT FYPHISTEA FPDLGQDLF YFYSNLGEQ 
DFYRSVLRC LIEFFHSFG LNLYEIEV
    CDS sequence
    • >TC015632 RA
      atgtttcct gaacttccc ccgatttac tggtgcctg 
gcactgacc cgaatcatc ctagtccta ataccacaa 
ctaggctac atccaccca gacgaattc ttccagtca 
attgaagtg caagcaggc aaagctttc cacgtcgaa 
agcaacatc ccgtgggaa tacaacgcc acattccca 
gtccggagc gtaacaatc ccatatttt accatcggc 
atggtttac aagctggcc aatgtggct gaatatttc 
ctcaaacaa tactcaaca ctttcgata attacgccc 
tacttggtg gttgtaggc cctcgtttt ttaatgtgt 
gcgttatca ttccttgtc gatttaatt ctctacaaa 
atctgcgtc aacaacaac gaaaagtac aaaaaccgg 
cttgtagtc ctggccagt tcttacgtg gtcttagtt 
tacggcacg cgcactttt tcgaacact ttcgagctc 
gtacttttc gcgctcctc caatactac gtctgcgag 
agtttagtt ttttcaaat actctgatt aaaaagcgc 
gaatattta aattatcga tacgagagg agtcgaaca 
gttgtagaa aaagcaaag tttcataaa ttgcgactg 
ttgctaacg tctgattcc ttgcggaat tgtgtgcag 
attagcgtg atcacggtt ttgggtttt ttcaatcgg 
cccactttt ctcgcattt gcaatgttt ccggtgttt 
ttctggctg tatagaggg ttgggtaat aaattagtc 
gcgcctatg aattaccat ttgaggata ttggcactg 
attgtgtgc tcaattcct acgattctg ctcagtgtt 
ttaatcgat tcgttctac tacgggtat ataacgtgg 
ggagaggtc ggggtttta cacgttacg atcgataat 
tttgtcttc acgcctttg aactttatt ttgtataat 
atggattcg ggtaatttg gctgagcac gggctacat 
ccgagattt ttacacgtg cttgtaaac atgccttta 
ctctttggt ctgctcgcc ttgttcgcc tactacaat 
ttttgccaa gcggtgtac aatttggta accggtcga 
catcaccta ctaccaact gtacgaagt atcaagggc 
cttatgatg ttatcatac ttgggcccc ctgacaatc 
ctgtcaata ttccctcac caggagccc cgtttccta 
atcccgttg atcctccca ctggtgtat ttatccacc 
aatagcgta ttccccgaa tctgacaat attttgatc 
aaactcgaa gcctcaacg ttaaaaaac cgtgccccc 
gaaatggcc aaaagccca acaactttc ctcaaactg 
tggctagtt gtgaattta attctggtg ctatttttc 
ggcttcctg caccaaggc ggagtgtac cgatctggt 
gaatttctg tacaaagac atgaaacgg cactcgaga 
actgacttt tacgttgtc accagtcat atttactca 
atgcccaaa agtctagtt ttgcaaaaa tcgagcgat 
gttctgcac cacaccaag cgcacgaaa tacaccgtg 
aataagcgg ttttttctc tatgagaaa gggtcgtcc 
gacttggac ttggtcgta aaagacttg caaatattg 
cgtgggaag ctccaagat tatagatgg aatttcaag 
agtaaaaag tataaattg attttgatt attccaagt 
agtttggag gaccgcttg agttattca gcgaatagt 
cagttcgaa tttaaactc gtcacaact ttttatcca 
catatcagt accgaggcg tttccggat ttgggccaa 
gatttgttt tatttctac tcgaatttg ggggagcaa 
gatttttat aggtcggta ttgcggtgc ttgattgag 
ttttttcac tcgtttggg ctcaatttg tacgaaatt 
gaagtgtag
    mRNA sequence
    • >TC015632 RA
      tttgtcaga atatttgtc aaaattcaa aatgtaaac 
aaaatgttt cctgaactt cccccgatt tactggtgc 
ctggcactg acccgaatc atcctagtc ctaatacca 
caactaggc tacatccac ccagacgaa ttcttccag 
tcaattgaa gtgcaagca ggcaaagct ttccacgtc 
gaaagcaac atcccgtgg gaatacaac gccacattc 
ccagtccgg agcgtaaca atcccatat tttaccatc 
ggcatggtt tacaagctg gccaatgtg gctgaatat 
ttcctcaaa caatactca acactttcg ataattacg 
ccctacttg gtggttgta ggccctcgt tttttaatg 
tgtgcgtta tcattcctt gtcgattta attctctac 
aaaatctgc gtcaacaac aacgaaaag tacaaaaac 
cggcttgta gtcctggcc agttcttac gtggtctta 
gtttacggc acgcgcact ttttcgaac actttcgag 
ctcgtactt ttcgcgctc ctccaatac tacgtctgc 
gagagttta gttttttca aatactctg attaaaaag 
cgcgaatat ttaaattat cgatacgag aggagtcga 
acagttgta gaaaaagca aagtttcat aaattgcga 
ctgttgcta acgtctgat tccttgcgg aattgtgtg 
cagattagc gtgatcacg gttttgggt tttttcaat 
cggcccact tttctcgca tttgcaatg tttccggtg 
tttttctgg ctgtataga gggttgggt aataaatta 
gtcgcgcct atgaattac catttgagg atattggca 
ctgattgtg tgctcaatt cctacgatt ctgctcagt 
gttttaatc gattcgttc tactacggg tatataacg 
tggggagag gtcggggtt ttacacgtt acgatcgat 
aattttgtc ttcacgcct ttgaacttt attttgtat 
aatatggat tcgggtaat ttggctgag cacgggcta 
catccgaga tttttacac gtgcttgta aacatgcct 
ttactcttt ggtctgctc gccttgttc gcctactac 
aatttttgc caagcggtg tacaatttg gtaaccggt 
cgacatcac ctactacca actgtacga agtatcaag 
ggccttatg atgttatca tacttgggc cccctgaca 
atcctgtca atattccct caccaggag ccccgtttc 
ctaatcccg ttgatcctc ccactggtg tatttatcc 
accaatagc gtattcccc gaatctgac aatattttg 
atcaaactc gaagcctca acgttaaaa aaccgtgcc 
cccgaaatg gccaaaagc ccaacaact ttcctcaaa 
ctgtggcta gttgtgaat ttaattctg gtgctattt 
ttcggcttc ctgcaccaa ggcggagtg taccgatct 
ggtgaattt ctgtacaaa gacatgaaa cggcactcg 
agaactgac ttttacgtt gtcaccagt catatttac 
tcaatgccc aaaagtcta gttttgcaa aaatcgagc 
gatgttctg caccacacc aagcgcacg aaatacacc 
gtgaataag cggtttttt ctctatgag aaagggtcg 
tccgacttg gacttggtc gtaaaagac ttgcaaata 
ttgcgtggg aagctccaa gattataga tggaatttc 
aagagtaaa aagtataaa ttgattttg attattcca 
agtagtttg gaggaccgc ttgagttat tcagcgaat 
agtcagttc gaatttaaa ctcgtcaca actttttat 
ccacatatc agtaccgag gcgtttccg gatttgggc 
caagatttg ttttatttc tactcgaat ttgggggag 
caagatttt tataggtcg gtattgcgg tgcttgatt 
gagtttttt cactcgttt gggctcaat ttgtacgaa 
attgaagtg tagagggag agaaggcgt tggttctgc 
tgatttgat tgaaatttt gctgtttta atcgcctgt 
taattactc gtagaagtt ttactattt gtatacagt 
gtgctatga tctgtttat taaattata ttgaaatga

    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