Status
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Gene information
General information
TC009381 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: 1303946..1306167
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
    		TC009381
    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
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    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01542

    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: 10.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): less than 30%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
     legs podomer random shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs podomer potentially shape fused - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

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

    Fertility
    egg production: number <50% of expected -
    tropharium shape irregular - Number of animals showing the phenotype: 4
    previtellogenic egg chamber partiallyfused - Number of animals showing the phenotype: 4
    vitellogenic egg chamber partiallydegenerated - Number of animals showing the phenotype: 4
    mature egg not present - Number of animals showing the phenotype: 4
    egg chamber partiallyanteriorized - Number of animals showing the phenotype: 4

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009381 RA
      MDDSEANTF RILLATDLH LGYGLNNSI RENDTFRTF 
EEILQIANK EKVDFILLG GDLFHEARP TPHCIKKTI 
ELIRKYCFG DKPVEIEFF SDPSLHFPG NASVNYEDP 
NINVSIPIF SIHGNHDDP TGKNHVSAL DLFSSMGLV 
NYFGRWDDV TKVEINPIL LKKGDSKLA LYGLSHIRD 
ERLARLFLD KKVVTKTPE DLNDWFNVF ILHQNRANR 
GAKNFIADS FIPEFIDLV MWGHEHDCR IEPSASAGG 
NCYITQPGS SVATSLAEG EALTKKIGL LRVCGKNFN 
LHPIELQTV RPFIFSCLS IEPPENFAG KIAHSERTK 
ILVREKIES MIEEANNLN RDNMLPLIR LIIKYEDER 
QVFNPIRFG QEFINKVAN PEDIVKFAT HYKQARRTN 
NVHVNFIDP NDEHVTSVI DLISKYFEG DNHLSALSV 
TGLNEAVNK FLESNDNDA PQVLLNEQE EYLMKKLME 
LKPEEAEIE DCLKQISES RSVEEFRDV LRDPNRRQN 
LNSVTVDDQ ITIDDSDDE NNVSVSSRP AKGPGSRGG 
RGSRGGRGR GRGRAK
    CDS sequence
    • >TC009381 RA
      atggatgat tccgaagcc aatactttt cgaattttg 
ctcgcaaca gaccttcat ctaggctac ggccttaat 
aattcaatc cgagaaaac gacactttc cgcacattt 
gaggaaatc ctccaaatt gcaaataag gaaaaggtc 
gattttatt ttactcggg ggcgatttg ttccacgaa 
gcgcgccct acaccccac tgtatcaaa aaaaccatc 
gaactgata cgaaagtat tgcttcggg gataaacct 
gtcgaaatt gagtttttc tccgaccct tcactacac 
ttccccggc aatgccagc gttaattac gaggacccc 
aatattaat gtttccatt ccgattttt tcgattcac 
ggcaatcac gatgacccc actggtaag aaccacgtt 
tccgccctt gacttgttc tcgtccatg ggtctcgtg 
aattatttc gggcgctgg gacgacgtc accaaagtc 
gaaatcaat ccgattttg ctcaaaaag ggggactcg 
aagttggct ttgtacggc ctgtctcac attcgagac 
gaacgtttg gctcgctta tttttggac aaaaaagtc 
gtgactaaa acaccggag gatttgaac gattggttt 
aacgtgttc attttgcac caaaaccgg gcaaatcga 
ggggctaaa aacttcata gctgactca ttcatcccc 
gaatttatc gatctggtg atgtggggg cacgagcac 
gattgtcgc attgagcca agcgctagt gctgggggc 
aactgctat ataacgcaa ccggggagc tctgtcgcc 
acgtctctg gccgagggc gaagccttg acgaaaaaa 
atcggcctt ttgagggtc tgtggcaag aattttaac 
ctccatccg attgagttg caaacagtt cggccgttt 
attttcagc tgtctttcg attgagccc cccgaaaat 
tttgcaggg aaaatagcg cattctgaa cggactaaa 
attctagta agggagaaa attgaaagt atgatagaa 
gaagcgaac aatttgaat agggacaac atgttgccg 
ctgattagg ttaattatt aaatatgaa gatgagaga 
caggttttt aatccgatc aggtttgga caagaattt 
atcaacaaa gtcgctaat ccggaagat atcgtcaag 
tttgcaacc cattataaa caagcgaga cgaaccaat 
aatgttcac gtgaatttc atagatccg aatgatgaa 
cacgttacc agcgttata gacctaatt tcaaaatac 
ttcgagggg gacaaccac ttatcggct ctgtcggta 
actggctta aatgaggcc gttaataaa tttctggaa 
tcgaacgac aacgacgct ccacaagtc ttgttaaat 
gagcaggag gaatacctc atgaaaaaa ttaatggag 
cttaagcca gaagaagcc gaaattgaa gattgtttg 
aaacaaatt agcgagtca cgaagtgtt gaagaattt 
agggatgtt ttgagggat ccaaaccga cggcaaaat 
ctaaacagt gtgacagtg gatgatcaa attacgatt 
gatgatagt gatgatgaa aataatgtc tctgtgtca 
agtaggccg gctaaaggg cccggttcg aggggcgga 
cgcgggtcc aggggcggg agaggtcga gggagggga 
agggccaag tag
    mRNA sequence
    • >TC009381 RA
      agtgaattc ccccgaaac gttagtaaa gaacaattc 
gtggtagtg tcaccgtgt aaaatggat gattccgaa 
gccaatact tttcgaatt ttgctcgca acagacctt 
catctaggc tacggcctt aataattca atccgagaa 
aacgacact ttccgcaca tttgaggaa atcctccaa 
attgcaaat aaggaaaag gtcgatttt attttactc 
gggggcgat ttgttccac gaagcgcgc cctacaccc 
cactgtatc aaaaaaacc atcgaactg atacgaaag 
tattgcttc ggggataaa cctgtcgaa attgagttt 
ttctccgac ccttcacta cacttcccc ggcaatgcc 
agcgttaat tacgaggac cccaatatt aatgtttcc 
attccgatt ttttcgatt cacggcaat cacgatgac 
cccactggt aagaaccac gtttccgcc cttgacttg 
ttctcgtcc atgggtctc gtgaattat ttcgggcgc 
tgggacgac gtcaccaaa gtcgaaatc aatccgatt 
ttgctcaaa aagggggac tcgaagttg gctttgtac 
ggcctgtct cacattcga gacgaacgt ttggctcgc 
ttatttttg gacaaaaaa gtcgtgact aaaacaccg 
gaggatttg aacgattgg tttaacgtg ttcattttg 
caccaaaac cgggcaaat cgaggggct aaaaacttc 
atagctgac tcattcatc cccgaattt atcgatctg 
gtgatgtgg gggcacgag cacgattgt cgcattgag 
ccaagcgct agtgctggg ggcaactgc tatataacg 
caaccgggg agctctgtc gccacgtct ctggccgag 
ggcgaagcc ttgacgaaa aaaatcggc cttttgagg 
gtctgtggc aagaatttt aacctccat ccgattgag 
ttgcaaaca gttcggccg tttattttc agctgtctt 
tcgattgag ccccccgaa aattttgca gggaaaata 
gcgcattct gaacggact aaaattcta gtaagggag 
aaaattgaa agtatgata gaagaagcg aacaatttg 
aatagggac aacatgttg ccgctgatt aggttaatt 
attaaatat gaagatgag agacaggtt tttaatccg 
atcaggttt ggacaagaa tttatcaac aaagtcgct 
aatccggaa gatatcgtc aagtttgca acccattat 
aaacaagcg agacgaacc aataatgtt cacgtgaat 
ttcatagat ccgaatgat gaacacgtt accagcgtt 
atagaccta atttcaaaa tacttcgag ggggacaac 
cacttatcg gctctgtcg gtaactggc ttaaatgag 
gccgttaat aaatttctg gaatcgaac gacaacgac 
gctccacaa gtcttgtta aatgagcag gaggaatac 
ctcatgaaa aaattaatg gagcttaag ccagaagaa 
gccgaaatt gaagattgt ttgaaacaa attagcgag 
tcacgaagt gttgaagaa tttagggat gttttgagg 
gatccaaac cgacggcaa aatctaaac agtgtgaca 
gtggatgat caaattacg attgatgat agtgatgat 
gaaaataat gtctctgtg tcaagtagg ccggctaaa 
gggcccggt tcgaggggc ggacgcggg tccaggggc 
gggagaggt cgagggagg ggaagggcc aagtagttg 
gtaccaaat gatttttac ttttcgttc aaataacga 
aacatagat gactatttt tgataaaag gtttgtttt 
ttgttgcat cctagaata tgtgttata cttacctcg 
tgttgaaac cgtttcatt gcattaaga cgccgtatc 
gacttttca agagagtaa catacaata ttttttgtg 
ctgcctgta taaaaattg aatttttta attattaaa 
ataaatacc acaaaatta t

    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