Status
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Gene information
General information
TC014274 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_007420.3: 8277875..8279408
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
    		TC014274
    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
    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
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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_05599

    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: 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: 3 (9 dpi)
    Days post injection

    Fertility
    tropharium potentially partiallydegenerated - Number of animals showing the phenotype: 4
    egg chamber mostly not present - Number of animals showing the phenotype: 4

    vitellarium shortened - Number of animals showing the phenotype: 4
    vitellarium mostly not present - Number of animals showing the phenotype: 4
    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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014274 RA
      MLFRRVLAQ LSTRPKSSL VSANTVLHF DEIPSPKGL 
PLVGTTLAL IAHGSTPKL HDYVDKRHK QLGPIFKEK 
LGPVSAVFV ADPDEIRAV FDHEGKHPL HVLPDAWVA 
YNQMYGCPR GLFFMDGAN WWYHRRIMN RLLLKGDFR 
WIEGACECV SDKLIDSLM GESDYCGNL EATLYKWSL 
DVIVSILLG SGSYSQLCG ELEPKVQKL AQVTHLVFQ 
TSAKLALIP ASFASKFKI PQWRRFVDS VDNALAQAN 
ALVDTLIEK KPHSDGLLP KLLAEQITL EDIKRIIVD 
LVLAAGDTT AVAMEWMLY LVAKSPQIQ EKLRRNPDF 
VKHVFKETL RLYPVAPFL TRILPEDAI LGGYGVPKG 
TLVVMSIYT SGRDGRYFK NPGLFQPER WDRKDEFYS 
SEMKKASLP FAMGLRACV GRKVAETQL QMTLLKIVN 
KFEVELGNQ REVEIVLKM VAVPSEPLL LKFKKL
    CDS sequence
    • >TC014274 RA
      atgctcttc cgtcgtgtt ctcgcccaa ctctccaca 
cgccccaag agttcgctc gtgagcgcc aacacagtc 
ctccacttc gacgagatc ccgtccccg aaggggctc 
ccactcgtg ggcaccacc ctcgcgctc atcgcccac 
ggctcgacc cccaagctg cacgactac gtggacaag 
cgccacaag cagctgggg cccatcttc aaggagaaa 
ctaggccca gtgagtgcg gtttttgtc gcagacccg 
gacgagatc agggcggtg ttcgaccac gagggcaag 
caccccctg catgtgctg cccgacgcc tgggtggcc 
tacaaccag atgtacggc tgccccaga gggctgttt 
ttcatggat ggggccaac tggtggtac cacaggagg 
atcatgaat cggctgctc ttgaaaggc gattttagg 
tggattgag ggggcgtgc gagtgtgtc agtgataaa 
cttatcgat agtttgatg ggcgaaagt gactattgt 
gggaatttg gaagccact ttgtacaag tggtcgttg 
gacgttatc gtctcgatt ttattaggc agtggtagt 
tatagccaa ctttgtggg gagttggaa cctaaagta 
caaaaactg gcccaagtg acacacttg gtgttccaa 
actagcgcc aaattggcc ttaattccg gcctctttc 
gcgtccaaa ttcaaaata ccgcagtgg cggcgtttt 
gtcgactcc gtggacaat gccttggct caagctaac 
gcgcttgtg gacacgctt atcgagaaa aagccgcac 
agtgacggc ctcctccct aaactcctg gccgaacaa 
atcaccctg gaggacatc aaacggatt atcgtggac 
ctcgtgttg gcagccggt gacacgacc gctgtcgcg 
atggaatgg atgctctac cttgtggct aagagcccg 
caaatccag gaaaagttg cgccgaaac cccgatttc 
gtcaaacac gtttttaag gagactttg cggctttac 
cccgttgcg cccttcctt acaagaatt ctacctgag 
gatgccatt ttgggcggt tatggggtg ccgaaaggc 
acccttgtc gtaatgtcg atttataca agcgggcgt 
gacgggcgc tatttcaaa aacccgggg ctttttcag 
ccggaaagg tgggaccgc aaggatgag ttctacagc 
agtgagatg aaaaaagcg agtctgccg tttgcgatg 
ggcttgagg gcttgtgtc gggcgaaaa gtggcagag 
actcaattg cagatgaca cttttgaag atcgttaat 
aagtttgaa gttgagctg gggaaccag agggaggtc 
gagattgtt ttaaagatg gtggcggtg ccctcagaa 
ccgctccta ctaaagttt aagaaactg tga
    mRNA sequence
    • >TC014274 RA
      atagtgaaa aatgccgtt atttgctta tatctacga 
ccggtcgca ggtcacaac agtgctgtc gtagagccg 
gaacgatgc tcttccgtc gtgttctcg cccaactct 
ccacacgcc ccaagagtt cgctcgtga gcgccaaca 
cagtcctcc acttcgacg agatcccgt ccccgaagg 
ggctcccac tcgtgggca ccaccctcg cgctcatcg 
cccacggct cgaccccca agctgcacg actacgtgg 
acaagcgcc acaagcagc tggggccca tcttcaagg 
agaaactag gcccagtga gtgcggttt ttgtcgcag 
acccggacg agatcaggg cggtgttcg accacgagg 
gcaagcacc ccctgcatg tgctgcccg acgcctggg 
tggcctaca accagatgt acggctgcc ccagagggc 
tgtttttca tggatgggg ccaactggt ggtaccaca 
ggaggatca tgaatcggc tgctcttga aaggcgatt 
ttaggtgga ttgaggggg cgtgcgagt gtgtcagtg 
ataaactta tcgatagtt tgatgggcg aaagtgact 
attgtggga atttggaag ccactttgt acaagtggt 
cgttggacg ttatcgtct cgattttat taggcagtg 
gtagttata gccaacttt gtggggagt tggaaccta 
aagtacaaa aactggccc aagtgacac acttggtgt 
tccaaacta gcgccaaat tggccttaa ttccggcct 
ctttcgcgt ccaaattca aaataccgc agtggcggc 
gttttgtcg actccgtgg acaatgcct tggctcaag 
ctaacgcgc ttgtggaca cgcttatcg agaaaaagc 
cgcacagtg acggcctcc tccctaaac tcctggccg 
aacaaatca ccctggagg acatcaaac ggattatcg 
tggacctcg tgttggcag ccggtgaca cgaccgctg 
tcgcgatgg aatggatgc tctaccttg tggctaaga 
gcccgcaaa tccaggaaa agttgcgcc gaaaccccg 
atttcgtca aacacgttt ttaaggaga ctttgcggc 
tttaccccg ttgcgccct tccttacaa gaattctac 
ctgaggatg ccattttgg gcggttatg gggtgccga 
aaggcaccc ttgtcgtaa tgtcgattt atacaagcg 
ggcgtgacg ggcgctatt tcaaaaacc cggggcttt 
ttcagccgg aaaggtggg accgcaagg atgagttct 
acagcagtg agatgaaaa aagcgagtc tgccgtttg 
cgatgggct tgagggctt gtgtcgggc gaaaagtgg 
cagagactc aattgcaga tgacacttt tgaagatcg 
ttaataagt ttgaagttg agctgggga accagaggg 
aggtcgaga ttgttttaa agatggtgg cggtgccct 
cagaaccgc tcctactaa agtttaaga aactgtgac 
tgacttatt gttaccaat gtattttta aggtttaag 
ttaataaag atagcacaa cttg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY