Status
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Gene information
General information
TC009265 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_007422.5: 2196851..2202395
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
    		TC009265
    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_08632

    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: 40.0% (includes death as pupa, adult)

    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

    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 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - 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
     cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen dorsal partiallynot fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen posterior rounded - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009265 RA
      MDPSISWLQ PEQEGPAKH LWLRIWQTQ QELDSMNLK 
DVDSDPEFF PNGLSNHIM NGKTDKSGS TFVQRRRKG 
DNRASTKMM SRHPQKVVG EFGGCPWRK DPHVYARGI 
LGLHQEIDH FYQYMSPTR TEHLVRDDV VCRIKQIIL 
SKWPEAQVE VFGSYRTGL YLPTSDIDL VVIGKWSNL 
PLRTLEQEF LDNDVAQEN SIKVLDKAS VPIVKLTDK 
QTEIKVDIS FNMSNGVKS AELIKTYIH QFPVLPKLV 
YVLKQFLLE RDLNEVFTG GISSYSLIL MCISFLQLH 
PRPEMFVRG DANLGVFLI EFFELYGRK FNYMHTGIR 
IRDGGRYIS KEEMQKDMV DGHRPSLLC IEDPLLPSN 
DIGRSSYGV LQVKRAFEY AYTVLTNAV LPISSHNVE 
HSILGRIIR VTDKVIQYR RWIEKTFGH KYNSPTIPR 
PRPPRSLSS SGSTSSVEE SGGSSEGSD PPSRDISPN 
NMHVQRHIQ PKNHNQWRN NRKYKNSPH NNYNQSTTT 
KRKKQTKQY
    CDS sequence
    • >TC009265 RA
      atggatcct tcgatatct tggttgcaa ccggagcaa 
gagggtcct gccaaacat ttgtggctt cgaatttgg 
caaacacaa caggagctg gacagcatg aacttgaaa 
gacgtcgac agcgacccg gagttcttc cccaacggc 
ctctccaac cacatcatg aacggcaag acggacaag 
agcggctcc actttcgtt cagcggaga cgtaagggc 
gacaatcgc gccagcacc aagatgatg agccgccat 
ccgcagaag gtggtgggc gagttcggg ggctgtccg 
tggcgcaag gacccgcac gtctacgcc agaggcatc 
ctgggtctg catcaggaa atcgaccac ttttaccag 
tacatgagc cccacaagg accgaacac ctcgtcagg 
gatgacgtc gtctgtagg atcaaacaa atcattctc 
tccaaatgg ccagaagca caagttgaa gttttcgga 
tcttacagg accgggctc tatcttccg acaagcgac 
atagacttg gttgttata ggcaaatgg tcaaacctt 
ccccttcgg acgctggaa caggaattc ctagacaac 
gacgtggcg caagagaac agcataaaa gtcctcgac 
aaagcgtca gtgccgatc gtgaaatta accgacaaa 
cagaccgaa atcaaagtg gacatttcc ttcaatatg 
tcgaacggt gtaaaatcg gccgaactg ataaaaact 
tacatacat cagtttcca gtgttgccg aaattagtt 
tacgtttta aaacagttc cttttagaa agagactta 
aacgaagtg ttcaccggt ggtatatct agttacagt 
ttaatattg atgtgcata agtttcctt cagttgcat 
ccacgaccg gaaatgttt gtcagaggc gacgctaat 
ttaggcgtt ttccttatt gaatttttc gaattgtac 
ggtagaaaa tttaattat atgcatacc ggaattcgg 
atacgagac ggcggacgg tacattagc aaagaagaa 
atgcaaaag gacatggtg gacggacac aggcctagt 
cttttgtgc atcgaagat ccactcttg ccatccaac 
gacatcggc agaagcagc tacggcgtc ctgcaggtg 
aaacgggct ttcgagtac gcgtacact gttttaacg 
aatgccgtc cttccaatc tcgtcacac aacgtggag 
cactcgata ttaggtaga ataataaga gtaaccgac 
aaagtgatc caataccgg cgatggatc gaaaaaact 
tttggtcat aagtacaac tctccgacg atcccccga 
ccaaggcct cctcgttcc ctgtccagc agcggctcc 
acatcgagc gttgaggaa agtgggggc agttcagaa 
gggtccgat cctccttcg cgcgacata tcaccgaac 
aacatgcat gtccaacgc cacatccag ccaaagaat 
cacaatcaa tggagaaat aatcggaaa tataagaat 
agccctcac aataattat aaccagtcg accacaaca 
aagcgtaaa aaacaaacc aaacaatac tga
    mRNA sequence
    • >TC009265 RA
      cgagttgaa atttgcgac agtggtcgc gaaactggt 
ttcgcttga atctggttt ggttcggtg ggtggttta 
aaaccgtgg gatggtttg gtggtcgct ggggcgctt 
agcaccgct cgtgttgga caagtgaca gcgcgagga 
gtgacgttt cggtggtgt ttgtgtgta tttttgtga 
gttttgggc gcttttttg aaattggcg ccacgtcag 
tcgggtgtc gggcgcgct atctaccga gcatgcgag 
acacctgtc agtttttgg tcgtgtgat atgcacaag 
gtgtgactt cagcgtgtg ttttaatta aaattgatg 
taataaata aaaatagcc gtatggtga agaaatcat 
aaactatct gtgattgtt tgaatggat ccttcgata 
tcttggttg caaccggag caagagggt cctgccaaa 
catttgtgg cttcgaatt tggcaaaca caacaggag 
ctggacagc atgaacttg aaagacgtc gacagcgac 
ccggagttc ttccccaac ggcctctcc aaccacatc 
atgaacggc aagacggac aagagcggc tccactttc 
gttcagcgg agacgtaag ggcgacaat cgcgccagc 
accaagatg atgagccgc catccgcag aaggtggtg 
ggcgagttc gggggctgt ccgtggcgc aaggacccg 
cacgtctac gccagaggc atcctgggt ctgcatcag 
gaaatcgac cacttttac cagtacatg agccccaca 
aggaccgaa cacctcgtc agggatgac gtcgtctgt 
aggatcaaa caaatcatt ctctccaaa tggccagaa 
gcacaagtt gaagttttc ggatcttac aggaccggg 
ctctatctt ccgacaagc gacatagac ttggttgtt 
ataggcaaa tggtcaaac cttcccctt cggacgctg 
gaacaggaa ttcctagac aacgacgtg gcgcaagag 
aacagcata aaagtcctc gacaaagcg tcagtgccg 
atcgtgaaa ttaaccgac aaacagacc gaaatcaaa 
gtggacatt tccttcaat atgtcgaac ggtgtaaaa 
tcggccgaa ctgataaaa acttacata catcagttt 
ccagtgttg ccgaaatta gtttacgtt ttaaaacag 
ttcctttta gaaagagac ttaaacgaa gtgttcacc 
ggtggtata tctagttac agtttaata ttgatgtgc 
ataagtttc cttcagttg catccacga ccggaaatg 
tttgtcaga ggcgacgct aatttaggc gttttcctt 
attgaattt ttcgaattg tacggtaga aaatttaat 
tatatgcat accggaatt cggatacga gacggcgga 
cggtacatt agcaaagaa gaaatgcaa aaggacatg 
gtggacgga cacaggcct agtcttttg tgcatcgaa 
gatccactc ttgccatcc aacgacatc ggcagaagc 
agctacggc gtcctgcag gtgaaacgg gctttcgag 
tacgcgtac actgtttta acgaatgcc gtccttcca 
atctcgtca cacaacgtg gagcactcg atattaggt 
agaataata agagtaacc gacaaagtg atccaatac 
cggcgatgg atcgaaaaa acttttggt cataagtac 
aactctccg acgatcccc cgaccaagg cctcctcgt 
tccctgtcc agcagcggc tccacatcg agcgttgag 
gaaagtggg ggcagttca gaagggtcc gatcctcct 
tcgcgcgac atatcaccg aacaacatg catgtccaa 
cgccacatc cagccaaag aatcacaat caatggaga 
aataatcgg aaatataag aatagccct cacaataat 
tataaccag tcgaccaca acaaagcgt aaaaaacaa 
accaaacaa tactgactt tttaatttt tatttatta 
ggttaaaac gcagcaggt acgcatgtt tatatgcct 
ggtattctg cagttgcaa ttgctgata atgacaaaa 
aaaatacat aatagccgc caaaagcca aaaaaagat 
aaaagtaat cgataagga aaatgtaac aaaaaaccg 
gttcttttt gttttattg tataggatt gtagtcttg 
aaatttctg tgttagtag gaagccatc tcatattgc 
tagcgttcc ataattgtt gcagtctgg agagattac 
attaaaatt ctacgtgtg ttcgccagt gttatgttt 
tatttgcat ttacagtta caactggga gtattgatg 
gcatatgat ggattatta tctatacgc aacaatttt 
atttccggg cttttattt ttaccgtct gttttttat 
gcaatacgt tgtggtgca atattttta tctgataat 
tttattaca tatcgagga tatatcaag tcaagattt 
tacttccat ggaaatttt tagaggaaa tagtcgcat 
tattaattt cattctcat ttcgagtgt gtgattgta 
attgtaaag gaaattgaa ttgtaaaat attgtgata 
taatagatt aagtgacgt ggacatgaa tcaggacag 
tgcaacctg tgactattt tattttatt tgttttatt 
gggggctga aactcgtca atttcatcg tttgcgttc 
aatctggtg atcatgtga atgaaaatt cttttttgt 
tccaattgt aaatatatt aattttgtg tttaatgca 
aaaacgcga tatctggcc gttttaggt ctagtgtat 
gtttttttt tcgaacgaa ttttgtttt tgttgggtt 
ctctttcaa aaattcact ttggagatt taaacgatt 
tgttaaatt ttgacattt ttatgtgaa gttgttact 
agttaggtt aagtattta tattagcgt atagtttta 
agagaaagt tatcgattt atgtaaaac tattaaaaa 
tgttttcga tttttaata ggcatagac ttaagtcag 
tttaagtac aaaaagaaa atgtaaaaa aaagatgtt 
cattacaaa aaccaaaaa aaaattttg ttacattgt 
acgcgccaa gatttttgt aaacatata tatttattg 
aaaataacg gttgaaata tattttata tcttgtg

    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