Status
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Gene information
General information
TC015240 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: 9401665..9404559
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
    		TC015240
    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
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02438

    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: 60.0% (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: 2 (3 dpi)
    Days post injection

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

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

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     cuticle remnants without visible segmentation but polarity - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    cuticle potentially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen partially remaining - Penetrance (percentage of animals/eggs on slide): less than 30%

    antenna not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    hindgut protruding - Penetrance (percentage of animals/eggs on slide): more than 80%

    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 3 (19 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015240 RA
      MNISPSLSK FLFILILLS VIRGQEENE ELLAEIQLS 
NVELQDDCE NVANKYKSS IIDNTFTEK ITAQEIHSK 
LLRTQSETL RPFGDIPYD LQRNWELIV KPGDAILEE 
PDWSTLVSY EVGIDELIH TFKVHCKNN TKNCVEVKR 
GYDDLLETS RNATLRKKS WSAWQTLLS TKFNKFHSV 
LNLINKAAR LNEFDDPKL YWEKLQDLE GAYNLADGF 
WDQIKPFYT KLQNYIKTR LLRFYKTTS DDIPVYLSG 
SNFGDDWSS IANIILPHP QIYYYAESY LNQTSIKEI 
YKMAEQVTK DLALGPLGP KFWANSRFN LPFCENHVV 
TFCSQEHSE VFTCDKTSW VHYLNSFET AIDVALRSV 
NYVDLARLK LRYSAIDDA IVGLGSIFA IKNLRVKGV 
WDYELFQNN DNEMSELLL IALRVLPKL PYYLAADKW 
RLEVLQNGG GAMTATWWN LRKELQGIG GVFNNETDF 
LGDSFIVSN RPYLSKFLG TILQFQLLE HYRNGWQYA 
NESLAANFG NDDNFLTML HDRTSSDWP ALINGFGVY 
ELSATPLLD YFAPLNDYL DATLNTEQV VPSTTPKPT 
KAQKIKTLI VKKTNVTET DEDVQNDEP EPEVPRHIL 
EDREETPNH AMEKITVFI GVGLLAGVA AIIGFVILR 
KKMTGRGRT NNRRFET
    CDS sequence
    • >TC015240 RA
      atgaatatt tccccaagt ctatcgaaa tttttattt 
attttgatc ttgctgtcc gtaattcgg ggacaagaa 
gaaaatgaa gaactgtta gccgaaata caactctcc 
aatgtagaa ttgcaagac gattgcgaa aatgtagca 
aataaatac aaatcgtca ataatagac aatactttt 
acagaaaag attacagca caagaaatt cacagcaaa 
ttgttacga actcagtct gaaacatta cgacctttt 
ggcgacatt ccctacgat cttcagaga aactgggaa 
ttgatcgtc aaacccggc gatgcaatt ctggaagag 
ccagactgg agtacttta gtatcgtat gaggttggc 
atcgacgag ttaattcac acttttaaa gttcattgc 
aaaaacaat acgaaaaat tgtgttgaa gtcaagaga 
ggctatgat gacttgctc gaaacgtca agaaatgca 
actttacgg aagaagagt tggtccgct tggcagacg 
ctactttcg accaaattc aacaaattc cactcggtt 
ttgaatctc attaacaaa gcggctcga ctgaatgaa 
tttgacgac cctaagtta tactgggag aagttacaa 
gatctagaa ggcgcgtat aacttagcc gatggtttc 
tgggaccaa atcaaacca ttttacacg aagttacaa 
aattacatc aagacccgg cttttgcgt ttttacaaa 
acaactagt gacgacatc cctgtgtac ctttcgggt 
tcaaatttt ggggacgac tggagcagc attgccaac 
ataatccta ccccatcct caaatctat tactatgcg 
gagtcttac ctcaaccaa acttcaatc aaagaaatt 
tacaaaatg gccgagcaa gtcactaag gacttggcc 
ttaggccct ttgggcccc aaattttgg gccaatagc 
cgcttcaat ttgcccttc tgtgagaac cacgtggtt 
acgttctgc tcgcaggaa cattccgaa gtgttcact 
tgcgataaa acatcatgg gtccactat ttaaactca 
tttgagacg gcaattgac gtggcgtta cgtagcgtc 
aattatgtt gatttggca agactgaag ttgcgatat 
tccgccatt gacgacgcc attgttggt ctcggatcg 
atttttgct atcaagaat ctgcgagtc aaaggagtc 
tgggactac gaattgttc caaaacaat gataatgaa 
atgagcgaa cttttatta attgcactg agagttttg 
ccgaaactt ccgtactat ctggccgcc gataaatgg 
cggctggaa gtattgcaa aatggtgga ggcgccatg 
acggccacg tggtggaac ttgcggaag gagttgcaa 
ggaattggg ggagttttc aacaacgaa accgatttt 
cttggcgat tcgttcatt gtttcgaat cggccatat 
ttgagtaaa ttcctcgga accatcttg cagtttcaa 
ttgctggaa cattaccga aacgggtgg caatatgcc 
aacgaaagc cttgcggct aatttcgga aacgacgat 
aatttctta acaatgttg cacgacagg acgtccagt 
gattggcca gcattgatt aacggtttt ggggtttac 
gaattgtcg gcgacccca cttttggat tactttgct 
ccgctaaat gattatctg gacgcgaca ctgaatacg 
gaacaagtt gtgccttca acgacccca aagcccaca 
aaagcccag aaaattaaa actcttatt gttaaaaag 
acaaacgta acagagaca gatgaagat gtgcaaaat 
gatgaaccg gagcccgaa gttccgaga catattctt 
gaagatcgt gaagaaact cccaatcac gccatggaa 
aaaataaca gtttttata ggagtgggg cttttggcg 
ggtgtcgct gccattata ggatttgtg atacttagg 
aaaaaaatg acggggaga ggacggacg aataatagg 
cgctttgag acttga
    mRNA sequence
    • >TC015240 RA
      aaatacgtg tccaaaatc ttactggaa tgactaagg 
tcataccat cccaacttt cactcgttt cttcagttt 
ctcttaaac cgtgacaat gtcagatcg attattcac 
agaaataag cataaacat gttaattcc gagtgcacg 
aaaaccgca aatatgaag agataacag cgcaattgt 
ccccagaat acgaaagtc tagtaacca tcggtagaa 
atcttatca aggcaatga caatatttt gaccgttgc 
accaggttt gtttcatga ttcacgagg tttgtgaat 
agttacaaa tccacaact gtttagagt gcaagctta 
tttggtcta cttttgact attttcatg taaaactat 
tgtttttca ctgcccgaa atgaatatt tccccaagt 
ctatcgaaa tttttattt attttgatc ttgctgtcc 
gtaattcgg ggacaagaa gaaaatgaa gaactgtta 
gccgaaata caactctcc aatgtagaa ttgcaagac 
gattgcgaa aatgtagca aataaatac aaatcgtca 
ataatagac aatactttt acagaaaag attacagca 
caagaaatt cacagcaaa ttgttacga actcagtct 
gaaacatta cgacctttt ggcgacatt ccctacgat 
cttcagaga aactgggaa ttgatcgtc aaacccggc 
gatgcaatt ctggaagag ccagactgg agtacttta 
gtatcgtat gaggttggc atcgacgag ttaattcac 
acttttaaa gttcattgc aaaaacaat acgaaaaat 
tgtgttgaa gtcaagaga ggctatgat gacttgctc 
gaaacgtca agaaatgca actttacgg aagaagagt 
tggtccgct tggcagacg ctactttcg accaaattc 
aacaaattc cactcggtt ttgaatctc attaacaaa 
gcggctcga ctgaatgaa tttgacgac cctaagtta 
tactgggag aagttacaa gatctagaa ggcgcgtat 
aacttagcc gatggtttc tgggaccaa atcaaacca 
ttttacacg aagttacaa aattacatc aagacccgg 
cttttgcgt ttttacaaa acaactagt gacgacatc 
cctgtgtac ctttcgggt tcaaatttt ggggacgac 
tggagcagc attgccaac ataatccta ccccatcct 
caaatctat tactatgcg gagtcttac ctcaaccaa 
acttcaatc aaagaaatt tacaaaatg gccgagcaa 
gtcactaag gacttggcc ttaggccct ttgggcccc 
aaattttgg gccaatagc cgcttcaat ttgcccttc 
tgtgagaac cacgtggtt acgttctgc tcgcaggaa 
cattccgaa gtgttcact tgcgataaa acatcatgg 
gtccactat ttaaactca tttgagacg gcaattgac 
gtggcgtta cgtagcgtc aattatgtt gatttggca 
agactgaag ttgcgatat tccgccatt gacgacgcc 
attgttggt ctcggatcg atttttgct atcaagaat 
ctgcgagtc aaaggagtc tgggactac gaattgttc 
caaaacaat gataatgaa atgagcgaa cttttatta 
attgcactg agagttttg ccgaaactt ccgtactat 
ctggccgcc gataaatgg cggctggaa gtattgcaa 
aatggtgga ggcgccatg acggccacg tggtggaac 
ttgcggaag gagttgcaa ggaattggg ggagttttc 
aacaacgaa accgatttt cttggcgat tcgttcatt 
gtttcgaat cggccatat ttgagtaaa ttcctcgga 
accatcttg cagtttcaa ttgctggaa cattaccga 
aacgggtgg caatatgcc aacgaaagc cttgcggct 
aatttcgga aacgacgat aatttctta acaatgttg 
cacgacagg acgtccagt gattggcca gcattgatt 
aacggtttt ggggtttac gaattgtcg gcgacccca 
cttttggat tactttgct ccgctaaat gattatctg 
gacgcgaca ctgaatacg gaacaagtt gtgccttca 
acgacccca aagcccaca aaagcccag aaaattaaa 
actcttatt gttaaaaag acaaacgta acagagaca 
gatgaagat gtgcaaaat gatgaaccg gagcccgaa 
gttccgaga catattctt gaagatcgt gaagaaact 
cccaatcac gccatggaa aaaataaca gtttttata 
ggagtgggg cttttggcg ggtgtcgct gccattata 
ggatttgtg atacttagg aaaaaaatg acggggaga 
ggacggacg aataatagg cgctttgag acttgattt 
ttatgtgta ttaaattat tattttgta ataaaatgt 
tttaaattt g

    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