Status
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Gene information
General information
TC014612 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: 12364804..12367652
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
    		TC014612
    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_10105

    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

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: number 2nd lateral oviduct: - Number of animals showing the phenotype: 1

    ovariole degenerated - Number of animals showing the phenotype: 4

    yolk deposition degenerated - Number of animals showing the phenotype: 4

    previtellogenic egg chamber size decreased - Number of animals showing the phenotype: 2

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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014612 RA
      MPLFGKSQK SPTDIVKAL KEAVNALEK GEKKAEKAQ 
EEVSKNLVL IKNMLYGTS DAEPQTDII VAQLAQELY 
NSNLLLLLI QNLNRIDFE GKKDVAQVF NNILRRQIG 
TRSPTVEYI CTKPEILFT LMSGYELQE IALNCGTML 
RECARYEAL AKIMLYSDD FYNFFRYVE VSTFDIASD 
AFSTFKELL TRHKILCAD FLEVNYDKV FSHYQRLLN 
SENYVTRRQ SLKLLGELL LDRHNFTVM TRYISNPDN 
LKLMMNMLK ERSRNIQFE AFHVFKVFV ANPNKPKPI 
LDILLRNQD KLVDFLMKF HTDRAEDEQ FNDEKAYLI 
RQIKELRPM AGH
    CDS sequence
    • >TC014612 RA
      atgcctctg tttggaaaa tcgcaaaag agccccacc 
gatatcgtg aaagccttg aaggaggcg gtgaatgcg 
ctggaaaaa ggcgagaag aaggcggaa aaggcgcaa 
gaggaagtc agcaagaac ctggtgctg atcaagaac 
atgttgtat gggacgtcc gatgcggag ccccagacg 
gacataata gtggcccag ctggctcag gagctgtac 
aacagcaac ttgctgctg ctcctgatc cagaatctg 
aatcggatt gattttgag gggaaaaag gacgtggcc 
caggtgttc aataacatt ctgcgaagg cagattggc 
acgcggtct ccgaccgtg gaatacatc tgtaccaag 
cctgagatt ttgttcacg ctgatgtca gggtacgag 
ttgcaggaa atcgccctg aattgcggg acgatgttg 
cgcgagtgc gcccgctat gaggccttg gccaaaatc 
atgctttat tccgacgat ttctacaat ttttttaga 
tacgtcgaa gtgtcgact tttgatatc gcctcagat 
gcgttttct acgtttaag gaattgttg acgcgtcac 
aaaatcttg tgtgcggac tttttggaa gttaattat 
gacaaagtt ttcagccat tatcaacga ctcttaaat 
tccgaaaat tacgtcact agacgtcaa agtttgaaa 
ttgctcggc gaattactt ctggataga cataatttc 
actgtgatg acgaggtat atatccaat ccagacaat 
cttaaactt atgatgaat atgcttaag gaacgatct 
aggaacatc caatttgaa gccttccat gtatttaag 
gtgtttgtg gcaaatccc aacaaaccc aagccaatt 
ttggacatt ttgctccgc aatcaagac aaattagta 
gacttcttg atgaaattc cacacggac cgggcggaa 
gacgaacag tttaacgac gaaaaagcg tacctcatt 
aggcaaatt aaagaacta aggccgatg gccgggcat 
taa
    mRNA sequence
    • >TC014612 RA
      cagtccatc ccttatgac tgtttcgtt ctgtcaaat 
gtgtctaaa agtggtctg aatttctca aaaataaac 
acttttgtg atgagtagt gtaaagttt tgctagtcc 
ccggtgaag gcacgctcg acaacctca aaaaccgcc 
tcttgacct caaaaaacc cgcgaaatc tgtcactgt 
tcacccaaa aaatgcctc tgtttggaa aatcgcaaa 
agagcccca ccgatatcg tgaaagcct tgaaggagg 
cggtgaatg cgctggaaa aaggcgaga agaaggcgg 
aaaaggcgc aagaggaag tcagcaaga acctggtgc 
tgatcaaga acatgttgt atgggacgt ccgatgcgg 
agccccaga cggacataa tagtggccc agctggctc 
aggagctgt acaacagca acttgctgc tgctcctga 
tccagaatc tgaatcgga ttgattttg aggggaaaa 
aggacgtgg cccaggtgt tcaataaca ttctgcgaa 
ggcagattg gcacgcggt ctccgaccg tggaataca 
tctgtacca agcctgaga ttttgttca cgctgatgt 
cagggtacg agttgcagg aaatcgccc tgaattgcg 
ggacgatgt tgcgcgagt gcgcccgct atgaggcct 
tggccaaaa tcatgcttt attccgacg atttctaca 
attttttta gatacgtcg aagtgtcga cttttgata 
tcgcctcag atgcgtttt ctacgttta aggaattgt 
tgacgcgtc acaaaatct tgtgtgcgg actttttgg 
aagttaatt atgacaaag ttttcagcc attatcaac 
gactcttaa attccgaaa attacgtca ctagacgtc 
aaagtttga aattgctcg gcgaattac ttctggata 
gacataatt tcactgtga tgacgaggt atatatcca 
atccagaca atcttaaac ttatgatga atatgctta 
aggaacgat ctaggaaca tccaatttg aagccttcc 
atgtattta aggtgtttg tggcaaatc ccaacaaac 
ccaagccaa ttttggaca ttttgctcc gcaatcaag 
acaaattag tagacttct tgatgaaat tccacacgg 
accgggcgg aagacgaac agtttaacg acgaaaaag 
cgtacctca ttaggcaaa ttaaagaac taaggccga 
tggccgggc attaacaat tttcctatt aacattttt 
attaattat tattgttaa atatatatt tttaatttc 
agccgttac caagattta agccccaag gactcccgt 
atcatttaa tttcattga cgtccattt tatttgatt 
cttttacct gagctgagt ttcgcgctc aagcgataa 
taaatcgag tgatttcgt ttgtagttg agtttaggg 
tcggtaaaa gtataacta agtgtattt ataataata 
tatttatac ggaggagat gttaagtgt ttagtttgg 
tagggagca gaacacgaa ctgactttg cctaaatca 
aacctgatg ttctgccgg ttgtcgttt gtttcgttc 
cccttgccc ccttttgtt ggcttgtag caataattt 
ccgacttaa gtgtacttt gtttttata aaaataagt 
ctagtggtt agttagttt agtaatgaa ttctgtaaa 
tctattaat tcaattata aaaacatag tggggtgcc 
tataaatgc ttatgggta gttttaaac caattaatc 
ttattagaa attaaatga ccatccatt ggggagtgg 
gccgatttt cgccggttt tcgcgtggg aaaaccggg 
gaagtggcc aacggcact tgtgtaaat taatggagg 
gctgtaatt actaatagg atctattct tagcatact 
taaacttaa aaaatgaaa atgatagga tacctaata 
caattctaa atcttattg aaattgaat agttttata 
aaagaattt ctattcgag gataaaatt actaaggtg 
gattgttgt ttcgttcca ggaggtgcg ttagcgtta 
catttaggc acttgttca aatgttcaa acacgagtt 
gcgaaagcg aaattctct tttttctac acgttttag 
ttatgtatg ttattgtat ttattttaa attatatga 
tttacacag aaattggaa atacattct tttagatga 
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    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