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Gene information
General information
TC000748 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_007417.3: 6277659..6284660
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
    		TC000748
    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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    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_00166

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection

    Fertility
    egg chamber potentially differentiation aborted - Number of animals showing the phenotype: 4

    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 88.89% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 7 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    eclosion not fulfilled (not completely eclosed) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    eclosion not fulfilled (not completely eclosed) - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection

    Pupal morphology
    antenna slightly orientation irregular - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    wings shortened - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection


    legs orientation irregular - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000748 RA
      MAHGANMVL KREGKAGIG SRRIFAPHF KLQVLDSYR 
NDADCKGNQ RATARKYGI HRRQIQKWL QVEGNLRSS 
VGKERSARL PDDEAPAPL DFTTRARTP DPAPMDLSL 
KRPATKQSQ SAPAGPPPS PLRAPSPLG LARRPHPDV 
WDLSTKQRK EEAPKPKLF KPYLDDDTP KRAELPPCC 
AALSGCYYN NNVCDIKSE YSSYTLHEL QPYYYSYPS 
AYQSPEYEM APFYEDPNY VQSAVPLKQ RHSYSLDFK 
LSAIECYYQ DSVCKGNQR AVATKYNIH RRQVQKWLK 
QADELRQKN ETIKTTTQM VR
    CDS sequence
    • >TC000748 RA
      atggcccat ggggcgaat atggtgctg aagcgcgag 
ggcaaggcg ggcattggg tcgcggcgc atcttcgcc 
ccccatttc aagctgcag gtgctggac tcgtacagg 
aacgacgcc gactgcaag ggcaaccag agggcgacg 
gcccgcaag tacggcatc caccggcgc cagatccag 
aagtggctc caggtggag ggcaacttg cgcagcagc 
gtgggcaag gagcggagc gccagactg cctgacgac 
gaggccccc gcgcccctc gatttcacc acgcgcgcc 
cgcaccccg gaccccgcg cccatggac ctgtcgctc 
aagaggccc gccacaaag cagagccag agcgcacct 
gcgggcccc ccgccgtcg ccgctccgc gcgccgtcg 
ccactcggt ctcgcccga cggccgcac ccggacgtg 
tgggacctc tccaccaag cagcgcaag gaggaagcc 
cccaaacct aagctcttc aaaccgtac ctcgacgat 
gacaccccc aagcgcgcc gagttgccc ccctgctgc 
gcagccctt tccggttgt tactacaac aacaacgtc 
tgcgatatc aagtccgaa tattcgtcg tacactctc 
cacgagctc caaccctat tactacagc tacccgtca 
gcgtaccaa agcccagaa tacgaaatg gcgcccttc 
tacgaggac ccgaattac gtccaaagt gcggtgccg 
ttgaaacaa agacacagc tacagtctg gactttaag 
ttgagcgca atcgagtgc tattaccag gactctgtc 
tgcaaaggc aaccaacgg gcggttgcc accaagtac 
aacatccac cggagacaa gtgcagaag tggttgaag 
caagccgac gaattgcgg cagaagaac gaaaccatt 
aaaaccaca acgcagatg gtgagatag
    mRNA sequence
    • >TC000748 RA
      tcattggcc aaatagtag gtattaggt attagttaa 
tcgccacac attcgctca aaatcacgc aactctcgc 
acaaaacca cccaacgaa gtgattcaa agtgccacc 
aactcccac aaccaccat ccaaaatcc gggaaaagt 
gggtaaaaa accgtgaaa attcggcaa cggcgctcg 
taaacttgt ttcataaac ggatgtcgg tgcctccca 
ttcgctcga cgcaactac gacatacgt cggcggccc 
cagtcgtgc aaccgcgcg gtgcgccat cgcggggca 
cgtcgtagc tcttacttc aggtccctt ttgatggtg 
agaatacag tttagtcag tttaggtta ggtagtggg 
ggttttctg tgaatcgtg acgaaaatg gttgctcca 
tagttcggg agataagtc gaagtagtg gcattttgg 
ttgttttcg cgggttttg tggcagttg tgatggccc 
atggggcga atatggtgc tgaagcgcg agggcaagg 
cgggcattg ggtcgcggc gcatcttcg ccccccatt 
tcaagctgc aggtgctgg actcgtaca ggaacgacg 
ccgactgca agggcaacc agagggcga cggcccgca 
agtacggca tccaccggc gccagatcc agaagtggc 
tccaggtgg agggcaact tgcgcagca gcgtgggca 
aggagcgga gcgccagac tgcctgacg acgaggccc 
ccgcgcccc tcgatttca ccacgcgcg cccgcaccc 
cggaccccg cgcccatgg acctgtcgc tcaagaggc 
ccgccacaa agcagagcc agagcgcac ctgcgggcc 
ccccgccgt cgccgctcc gcgcgccgt cgccactcg 
gtctcgccc gacggccgc acccggacg tgtgggacc 
tctccacca agcagcgca aggaggaag cccccaaac 
ctaagctct tcaaaccgt acctcgacg atgacaccc 
ccaagcgcg ccgagttgc ccccctgct gcgcagccc 
tttccggtt gttactaca acaacaacg tctgcgata 
tcaagtccg aatattcgt cgtacactc tccacgagc 
tccaaccct attactaca gctacccgt cagcgtacc 
aaagcccag aatacgaaa tggcgccct tctacgagg 
acccgaatt acgtccaaa gtgcggtgc cgttgaaac 
aaagacaca gctacagtc tggacttta agttgagcg 
caatcgagt gctattacc aggactctg tctgcaaag 
gcaaccaac gggcggttg ccaccaagt acaacatcc 
accggagac aagtgcaga agtggttga agcaagccg 
acgaattgc ggcagaaga acgaaacca ttaaaacca 
caacgcaga tggtgagat aggacttga tcgtagttt 
tatatcatg gtgttaagc ctcgaagag tctaacgta 
ccaagcaat aacgaacat atcgggaat ggcctccat 
tgtgtattg ccttattaa atagctctt tagggattt 
attgataat tgtgggtgc tattgttca aatcttaga 
ctagtacat gaaatgtta ttgctcagt atataagtt 
acttgtgtg ccttgttag gagaaacgt gccaaaaat 
ggaaggcag ctattgcag aacaacgtt atccatgtc 
ttcctttgc cataatttt ttgtaatat agttattgt 
taaaactag atcatactg cctctttat ttattaatt 
tattttact tcaactttt ttatcttaa cgaatttat 
gtataaaca aacagtctt gtattcagt ctactgcaa 
ttgataatg tgattttta gacgtaatt ttatttgct 
ttcaaacat ttgtacata aactaatga tataataag 
aataatgtg accttacat ctgtaggtt gtgagcaat 
tatcggacg tttttcaaa ttgtacata cagctggcc 
tgactataa aacgaactt tttataaat attgtatta 
ttttatatg agatatttt atagatgat attaataaa 
aatgtatat attac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY
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