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Gene information
General information
TC004273 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: 3897520..3899354
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
    		TC004273
    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
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    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_00675

    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 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004273 RA
      MKLFLISLC FAFAQSAKI LGVFNHAGA SHTSIGKVL 
LKNLAKRGH HVTMISSYP MDEPVDNYR DIFLYENLE 
DFKQREKMY FTKDKTNEL ETLRNMTLT HTENTFTNP 
QVKELLESN ETFDLVIID WFFNEASLI FGHRLKAPV 
IYVSAFGNM LFLNDFTGN TLPYSYVPG AALSTSDEM 
SFKHRVVMT LLNLGYNLV LPWRNQAQY EILKRHFVD 
PPSIEELKE NIALVLAVS HFSFETSRP YTPSVVPVG 
GFHIDELKQ LPKDLEKFL NSAKNGAIF FSLGSQIKS 
TNLEKNTFA SIVKALGKL PQKILWKYE SDDFINLPK 
NIKIVKWAP QLEILAHPN VKLFISHCG TLSFIESIH 
FNKPLLCLP FNGDQLTNA AFARSRQFG AHISPDEIT 
EDSLFNKTT EVLTNPLYR KQMNFHSSL LREQPMKPM 
DLAIFWVEH VINHRTGDH LKTFATKLP WYKYYLVDV 
IGFFLGVVF IVVKIVLFL IKFVVRRVS RLSKSEIKA 
KND
    CDS sequence
    • >TC004273 RA
      atgaagtta tttttaatt tcgctctgt ttcgcattt 
gcccaaagc gcaaaaatt ctgggggtg ttcaaccat 
gcgggggcc agtcacaca tccattggt aaagtgcta 
ttgaaaaat ttggccaag agggggcac cacgttacc 
atgatcagt tcctaccca atggacgaa ccagtggat 
aactacagg gatattttc ctttatgaa aatttggaa 
gatttcaaa caacgtgaa aaaatgtac ttcactaaa 
gacaaaacc aacgaattg gagacgcta aggaacatg 
acgttaact cacaccgaa aacactttt accaacccc 
caagtgaaa gaacttctc gagtcaaat gagactttt 
gatttggtg ataattgat tggtttttc aacgaagct 
tcgcttatt ttcggccac cggctcaaa gcgccggtg 
atttacgtg tcggcgttt ggaaatatg ctgtttctg 
aacgacttt acgggaaat actttaccg tattcttac 
gtcccgggt gctgcattg tccactagt gacgaaatg 
tcctttaaa catcgggtg gtaatgact ttactgaac 
ttgggctat aatttagtg cttccctgg cggaatcaa 
gcccagtat gagattctc aagcgccat ttcgttgat 
cctccaagt attgaagaa cttaaagaa aatatagcg 
ctggttttg gccgtttct cacttcagt tttgagact 
tcaagacct tacacaccc agtgttgta ccagtgggt 
ggtttccac atcgacgaa ttgaaacaa ttacccaaa 
gacttggaa aaatttctc aatagtgcc aaaaacggg 
gcgattttt ttcagtctc gggagtcaa ataaagtcg 
actaatctt gaaaaaaac acttttgca agcatagtc 
aaagctttg ggtaaacta ccacagaaa atattgtgg 
aagtacgaa agcgacgac tttattaat ttgcccaaa 
aacataaaa atcgtcaag tgggcaccg cagttggaa 
attttggcg caccctaat gttaaattg tttatttct 
cactgtggc actttaagt ttcattgaa tcgattcat 
ttcaataaa cccttgctt tgtcttccc tttaacggg 
gaccagctc acgaacgca gcctttgct cggtcgaga 
cagtttggg gctcacatt tctccagat gaaatcaca 
gaagacagt ctgtttaat aaaaccaca gaagtgtta 
actaaccca ttatatcgg aagcaaatg aattttcac 
tcgtctttg ctgcgagag cagcccatg aaaccaatg 
gatttggcc attttttgg gtggaacat gtgataaat 
caccgaact ggtgatcat ttaaaaact ttcgctacg 
aagcttccg tggtataaa tattatctt gtcgatgtt 
attgggttt tttctgggt gtggttttt attgttgtt 
aaaattgtg ttgttttta attaagttt gttgttcga 
agggtgagt aggttgtct aagagtgaa attaaggcg 
aaaaatgat taa
    mRNA sequence
    • >TC004273 RA
      ttgtttaat ttaaaacca gtcaccatg aagttattt 
ttaatttcg ctctgtttc gcatttgcc caaagcgca 
aaaattctg ggggtgttc aaccatgcg ggggccagt 
cacacatcc attggtaaa gtgctattg aaaaatttg 
gccaagagg gggcaccac gttaccatg atcagttcc 
tacccaatg gacgaacca gtggataac tacagggat 
attttcctt tatgaaaat ttggaagat ttcaaacaa 
cgtgaaaaa atgtacttc actaaagac aaaaccaac 
gaattggag acgctaagg aacatgacg ttaactcac 
accgaaaac acttttacc aacccccaa gtgaaagaa 
cttctcgag tcaaatgag acttttgat ttggtgata 
attgattgg tttttcaac gaagcttcg cttattttc 
ggccaccgg ctcaaagcg ccggtgatt tacgtgtcg 
gcgtttgga aatatgctg tttctgaac gactttacg 
ggaaatact ttaccgtat tcttacgtc ccgggtgct 
gcattgtcc actagtgac gaaatgtcc tttaaacat 
cgggtggta atgacttta ctgaacttg ggctataat 
ttagtgctt ccctggcgg aatcaagcc cagtatgag 
attctcaag cgccatttc gttgatcct ccaagtatt 
gaagaactt aaagaaaat atagcgctg gttttggcc 
gtttctcac ttcagtttt gagacttca agaccttac 
acacccagt gttgtacca gtgggtggt ttccacatc 
gacgaattg aaacaatta cccaaagac ttggaaaaa 
tttctcaat agtgccaaa aacggggcg atttttttc 
agtctcggg agtcaaata aagtcgact aatcttgaa 
aaaaacact tttgcaagc atagtcaaa gctttgggt 
aaactacca cagaaaata ttgtggaag tacgaaagc 
gacgacttt attaatttg cccaaaaac ataaaaatc 
gtcaagtgg gcaccgcag ttggaaatt ttggcgcac 
cctaatgtt aaattgttt atttctcac tgtggcact 
ttaagtttc attgaatcg attcatttc aataaaccc 
ttgctttgt cttcccttt aacggggac cagctcacg 
aacgcagcc tttgctcgg tcgagacag tttggggct 
cacatttct ccagatgaa atcacagaa gacagtctg 
tttaataaa accacagaa gtgttaact aacccatta 
tatcggaag caaatgaat tttcactcg tctttgctg 
cgagagcag cccatgaaa ccaatggat ttggccatt 
ttttgggtg gaacatgtg ataaatcac cgaactggt 
gatcattta aaaactttc gctacgaag cttccgtgg 
tataaatat tatcttgtc gatgttatt gggtttttt 
ctgggtgtg gtttttatt gttgttaaa attgtgttg 
tttttaatt aagtttgtt gttcgaagg gtgagtagg 
ttgtctaag agtgaaatt aaggcgaaa aatgattaa 
aatttgtag aatgttttt tgaatttat tgttggatt 
ttttgtctt ggaagttat tattttatt attctttga 
aataaaaat ttattgcag tg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY
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