Status
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Gene information
General information
TC010637 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_007424.3: 7856937..7860317
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
    		TC010637
    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_01718

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 5 (3 dpi)
    Days post injection

    beetle stock: bad (increased lethality),
    Pupal morphology
    beetle stock: bad (increased lethality),
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature partially not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: in cases where nearly all muscles are missing, the defect is probably secundary due to the death of the larvae
    larval musculature sometimes thinner - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Comment: Muscles show normal shape at their attachement sites and are only thinner " in the middle" of the muscles. Effect seems to be strongest in all cases in the longitudinal dorsal muscles.
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

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

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 8 (16 dpi)
    Days post injection

    Pupal morphology
    antenna orientation bent - Number of animals showing the phenotype: 9

    antenna size shortened - Number of animals showing the phenotype: 4

    elytra partiallystructure blistered - Number of animals showing the phenotype: 9

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010637 RA
      MAKRPIRNN KPNLQTKKA QNARKANIV KKRVFTKPQ 
VQDARQKLI QRKLSTVKD ARDVLAKIA KGQDARNKL 
NKLRQKRSA TANGNIKVI GQNIVQKID KNGKISLVT 
NKSKSSTGI NATIQKELG LVTSPKKAV VRRALAASR 
VPPTVHTAV LNEIDSYNQ MLVRTYDPS LYKWSKPGM 
RTTASQLIG SLEGRVRGA KGEVFQGWQ NFPINKSPH 
GFIDLDAVD DEEMPMAPI APIKQTITL QGSSRISNI 
HSRLDSPIE QDTHGIFGQ PKTKVVVPA GHRIVVSNL 
QSTVTQDDV KELFEDIGQ LLAARLVRP GVAEVIYKN 
LKDAQKAVD TYHNRQLDG QPMKCLLVN KRPLNNPTA 
PALTKMESQ GLLNTIEVS GSSNSNKLV PDLSTIHKV 
LFQRK
    CDS sequence
    • >TC010637 RA
      atggcaaaa cgcccgatc cgcaacaac aaaccaaac 
ctccaaaca aaaaaggca caaaacgcc cgaaaggcc 
aacatcgtg aaaaaacgc gtcttcacc aagccacaa 
gtgcaagat gcgcgccag aaactcatc cagcgaaag 
ctcagcacc gtgaaagac gcccgggac gttttggcc 
aaaatcgcc aaaggccag gacgcccgt aacaagctc 
aacaaactg cgccaaaaa cggagcgcc accgccaat 
ggcaacatc aaagtgatt gggcaaaac atcgtccag 
aaaatcgac aaaaacggc aaaatcagc ctcgtgaca 
aacaagagc aagtcgtcg accggcata aacgccacg 
atacaaaaa gagttgggc ctggtcacc tcgcccaag 
aaggcggtc gtgcgcagg gccctcgcg gcgtcccgg 
gtgcccccg accgtgcac acagccgtc ttgaacgaa 
atcgactct tacaaccaa atgctggtg cgaacttac 
gacccctcc ttgtacaag tggtccaag ccgggcatg 
cggaccacc gcgtcgcag ttgatcggg tcgctggag 
gggcgcgtc cgtggggcc aagggcgaa gtcttccaa 
gggtggcaa aatttcccc attaacaag tcgcctcac 
gggtttatc gatcttgac gccgtcgac gatgaggaa 
atgccgatg gctcccatc gccccaatt aagcagacg 
ataaccttg cagggctcc tcgagaatc tcgaatatt 
cactcgcgg cttgatagc cccatcgag caagacacg 
cacgggatt ttcggacag cctaagacc aaagttgtc 
gtgccggcg ggacataga atagtagtg tctaatttg 
cagtccacg gttacgcag gatgatgtt aaagaattg 
tttgaagat attgggcag ttgttggcc gctagattg 
gtacgtccg ggagtcgct gaggtgatt tataagaat 
ttaaaggac gcgcagaag gccgtggat acttatcat 
aataggcag ttggatggg caaccaatg aaatgtctt 
ttggttaat aagagacct ttgaataat ccaacagcc 
cccgcgttg acaaaaatg gagagtcaa ggattgtta 
aatactata gaagtttct ggttcgtcg aattcaaat 
aagttagta ccggattta tctacaatc cacaaagta 
ttatttcaa cggaaatag
    mRNA sequence
    • >TC010637 RA
      aaagtttta tatttgaaa aaagcggtc ggtcccaga 
aggcgccag cgtcggtcc tccatcttg tctctgtca 
tttgtcatt tgtaaacga aaattgtgc gttttctcg 
tattatttg tatgtgaaa tccagctaa atcagcaaa 
aacattcgg agtttttcc acagttagt tgtaataat 
ggcaaaacg cccgatccg caacaacaa accaaacct 
ccaaacaaa aaaggcaca aaacgcccg aaaggccaa 
catcgtgaa aaaacgcgt cttcaccaa gccacaagt 
gcaagatgc gcgccagaa actcatcca gcgaaagct 
cagcaccgt gaaagacgc ccgggacgt tttggccaa 
aatcgccaa aggccagga cgcccgtaa caagctcaa 
caaactgcg ccaaaaacg gagcgccac cgccaatgg 
caacatcaa agtgattgg gcaaaacat cgtccagaa 
aatcgacaa aaacggcaa aatcagcct cgtgacaaa 
caagagcaa gtcgtcgac cggcataaa cgccacgat 
acaaaaaga gttgggcct ggtcacctc gcccaagaa 
ggcggtcgt gcgcagggc cctcgcggc gtcccgggt 
gcccccgac cgtgcacac agccgtctt gaacgaaat 
cgactctta caaccaaat gctggtgcg aacttacga 
cccctcctt gtacaagtg gtccaagcc gggcatgcg 
gaccaccgc gtcgcagtt gatcgggtc gctggaggg 
gcgcgtccg tggggccaa gggcgaagt cttccaagg 
gtggcaaaa tttccccat taacaagtc gcctcacgg 
gtttatcga tcttgacgc cgtcgacga tgaggaaat 
gccgatggc tcccatcgc cccaattaa gcagacgat 
aaccttgca gggctcctc gagaatctc gaatattca 
ctcgcggct tgatagccc catcgagca agacacgca 
cgggatttt cggacagcc taagaccaa agttgtcgt 
gccggcggg acatagaat agtagtgtc taatttgca 
gtccacggt tacgcagga tgatgttaa agaattgtt 
tgaagatat tgggcagtt gttggccgc tagattggt 
acgtccggg agtcgctga ggtgattta taagaattt 
aaaggacgc gcagaaggc cgtggatac ttatcataa 
taggcagtt ggatgggca accaatgaa atgtctttt 
ggttaataa gagaccttt gaataatcc aacagcccc 
cgcgttgac aaaaatgga gagtcaagg attgttaaa 
tactataga agtttctgg ttcgtcgaa ttcaaataa 
gttagtacc ggatttatc tacaatcca caaagtatt 
atttcaacg gaaatagct tgcgtgttt tttttttgt 
attgtcatt caagaatta ttgttctct taatatgtg 
taaattata tttataatt ttcgttttt ttccttatc 
catgggtaa taaatgata agtaataga

    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