Status
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Gene information
General information
TC015929 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: 4208744..4210598
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
    		TC015929
    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_06360

    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: 20.0% (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 - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 20.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015929 RA
      MDEIGSAVM HSETPNCRV VPFVHVDAQ ITYSLLFPI 
SDVSEEDFI FADFAEGVQ DLVQKRAAL LPWVPHEFD 
LSFEPEMPG PDYYLSGHV EESLPDLKQ LNRKKPQEK 
YKVFTEYSL VRDFLTDER FEFVDDEDT AEILWLTRH 
FKDYSKLSE TPQKFVNQF PFEYVLTIK DLLCLTCRK 
AARARNQSM EAAKWFPVT YNLRTEIGH FVSYFQKHK 
NRENFWIIK PYNLARSLD IHITDNLNY IMRLPATGP 
KIAQKYISN PVLFERPEC GPVKFDIRY VILLKSVKP 
LKAYVYREF FVRFANKSF ELKDFHDFE KHFTVMNYD 
ENVQLKHML CSEFRIFWE QQYPNFDWD SVQKLILGV 
LRNVLEGAV KDEPPCGVA HSPQSRALY AADLMLEWG 
ESRDIQPKL LEINWTPDC QRASAVFG
    CDS sequence
    • >TC015929 RA
      atggacgaa ataggttcg gctgtgatg cacagtgag 
acgcccaat tgccgggtc gtgcccttc gtgcacgtg 
gatgcgcaa atcacctac tcgctgctt ttccccatt 
tcggatgtt tcggaggag gattttatt tttgcggat 
tttgccgaa ggggtccag gatttggtg caaaagcgg 
gccgctttg ctaccgtgg gtgccccac gagttcgac 
ttgagtttc gagcccgaa atgccaggg ccggactac 
tatctaagc ggccacgtt gaagaaagt ttgcctgat 
ctgaagcaa ctgaaccgg aaaaaacct caagaaaag 
tacaaagtt ttcacggaa tatagtctc gtgagagac 
tttctgact gacgaaagg ttcgagttt gtggatgac 
gaagacacg gccgagatc ttgtggctc acgcggcac 
tttaaagac tattcaaaa ttgagcgaa acgccgcaa 
aaattcgtc aatcagttc ccgtttgag tacgtttta 
actatcaaa gacctgctt tgtctgact tgtcgcaaa 
gcagccagg gcccgaaac cagtcgatg gaagcggca 
aagtggttc cccgtcact tacaatttg cggaccgaa 
atcggtcat tttgtgagt tacttccaa aaacacaaa 
aaccgggaa aatttctgg atcatcaaa ccgtacaat 
ttggcccga agtctggac atccacatc accgataat 
ctcaactac atcatgcgg ctcccggca acggggccc 
aaaatcgct cagaagtac atcagtaac ccggtcctg 
ttcgaacgg cctgaatgc ggccctgtt aagttcgac 
attcgttac gtgattctg ctcaaaagt gtgaaaccg 
ctgaaagcg tacgtttac agggagttt ttcgtacgt 
tttgcgaac aaatcgttc gaactgaag gactttcac 
gactttgaa aaacacttc actgtgatg aactacgac 
gaaaacgtc cagcttaag cacatgttg tgttccgaa 
tttcgcatt ttttgggag caacaatat ccgaatttt 
gattgggac agtgtgcaa aaattaatt ttgggggtt 
cttaggaac gtgttagag ggggctgtt aaggacgag 
cccccttgt ggggtggcc cacagtccg caatcgcgg 
gctttgtac gccgctgat ttgatgctg gaatggggg 
gagtcccgg gacatccag cccaaattg ctggaaatt 
aactggact ccagactgc caacgggca tctgctgtt 
tttggatga
    mRNA sequence
    • >TC015929 RA
      atgtgtcac cttgacatc ccggtttta ggttataaa 
aaaatcaaa aaacgagta tggggcgca cgacggacc 
tggacgcct tcctcaacc tgcaccgcg accagctga 
cctcctccg gcatccccg agatctact ggggcaccc 
tcaacgaaa aaatccaaa cgcagcttt tcaacgccg 
gtgagagct tccaactgc ttcaaatcg actacgagc 
gcgagcgcc tgccccacg agccggcgt gggggctcc 
aggccacca ccgacatcg acaagtccg accccaaac 
acatctact tgatcgacc atgcctgga cctttcggg 
tcggacacg ccaaaaacc agctgcttc agttcgact 
cgctccgca gccggttgt gcaatattt tggggctca 
atgataatt taccgaaag aagaggtgg cggagcggg 
ttttcaccg agatctgga ggctgtgca acacgtact 
cgatcggaa acgcggaaa atatcgagg agaggttgc 
cggtttggt acgttatgg acgaaatag gttcggctg 
tgatgcaca gtgagacgc ccaattgcc gggtcgtgc 
ccttcgtgc acgtggatg cgcaaatca cctactcgc 
tgcttttcc ccatttcgg atgtttcgg aggaggatt 
ttatttttg cggattttg ccgaagggg tccaggatt 
tggtgcaaa agcgggccg ctttgctac cgtgggtgc 
cccacgagt tcgacttga gtttcgagc ccgaaatgc 
cagggccgg actactatc taagcggcc acgttgaag 
aaagtttgc ctgatctga agcaactga accggaaaa 
aacctcaag aaaagtaca aagttttca cggaatata 
gtctcgtga gagactttc tgactgacg aaaggttcg 
agtttgtgg atgacgaag acacggccg agatcttgt 
ggctcacgc ggcacttta aagactatt caaaattga 
gcgaaacgc cgcaaaaat tcgtcaatc agttcccgt 
ttgagtacg ttttaacta tcaaagacc tgctttgtc 
tgacttgtc gcaaagcag ccagggccc gaaaccagt 
cgatggaag cggcaaagt ggttccccg tcacttaca 
atttgcgga ccgaaatcg gtcattttg tgagttact 
tccaaaaac acaaaaacc gggaaaatt tctggatca 
tcaaaccgt acaatttgg cccgaagtc tggacatcc 
acatcaccg ataatctca actacatca tgcggctcc 
cggcaacgg ggcccaaaa tcgctcaga agtacatca 
gtaacccgg tcctgttcg aacggcctg aatgcggcc 
ctgttaagt tcgacattc gttacgtga ttctgctca 
aaagtgtga aaccgctga aagcgtacg tttacaggg 
agtttttcg tacgttttg cgaacaaat cgttcgaac 
tgaaggact ttcacgact ttgaaaaac acttcactg 
tgatgaact acgacgaaa acgtccagc ttaagcaca 
tgttgtgtt ccgaatttc gcatttttt gggagcaac 
aatatccga attttgatt gggacagtg tgcaaaaat 
taattttgg gggttctta ggaacgtgt tagaggggg 
ctgttaagg acgagcccc cttgtgggg tggcccaca 
gtccgcaat cgcgggctt tgtacgccg ctgatttga 
tgctggaat ggggggagt cccgggaca tccagccca 
aattgctgg aaattaact ggactccag actgccaac 
gggcatctg ctgtttttg gatgaaacg tccgatgcg 
tttatcgaa ttgtaaag

    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