Status
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Gene information
General information
TC014413 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: 10219527..10222336
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
    		TC014413
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05628

    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: 100.0% (includes death as pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (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

    adult lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014413 RA
      MADADDLLD YEDEENPEQ TVAETVGAG DQKKGIKGT 
YVSIHSSGF RDFLLKPEI LRAIVDCGF EHPSEVQHE 
CIPQAVLGM DILCQAKSG MGKTAVFVL ATLQQLEPT 
ENVVYVLVM CHTRELAFQ ISKEYERFS KYMPNIKVG 
VFFGGLSIQ KDEEVLKNN CPHIVVGTP GRILALVRS 
KKLNLKHLK HFILDECDK MLELLDMRR DVQEIYRNT 
PHGKQVMMF SATLSKEIR PVCKKFMQD PMEVYVDDE 
AKLTLHGLQ QHYVKLKEN EKNKKLFEL LDVLEFNQV 
VIFVKSVQR CIALAQLLT EQNFPAIGI HRGMNQEER 
LSRYQQFKD FQKRILVAT NLFGRGMDI ERVNIVFNY 
DMPEDSDTY LHRVARAGR FGTKGLAVT FVSEESDAK 
ILNEVQDRF DVNITELPD EIDLSTYIE GR
    CDS sequence
    • >TC014413 RA
      atggccgat gccgatgat cttttagac tacgaagac 
gaagaaaat ccggaacaa accgttgcc gagaccgtc 
ggggccggt gaccagaag aagggcatc aagggtact 
tacgtgtcc atccacagt tcaggcttc agggatttt 
ctcctgaaa ccggaaatt ttgcgcgcc attgttgac 
tgcggtttt gagcacccg tctgaagtg caacacgaa 
tgcatccca caggcagtt cttggtatg gacatcttg 
tgccaagcc aagtccggt atgggcaag actgcagtg 
ttcgtcctg gcgacgctt cagcagttg gagccaacc 
gaaaacgtg gtttacgtg cttgtaatg tgccacacg 
cgcgaattg gccttccaa atcagcaaa gagtacgag 
cggttcagt aaatacatg ccaaacatc aaagtcggt 
gtgtttttc ggcggcttg tctatacaa aaggacgag 
gaggtgttg aagaataat tgcccccat atcgtcgtt 
gggacaccg ggacgcatc ctcgccttg gtccggtcc 
aagaaactc aatctcaag catctcaaa catttcatt 
cttgacgag tgcgacaag atgctggag ttattagat 
atgaggagg gacgtgcaa gaaatttac cgtaacacg 
ccgcacggc aagcaagta atgatgttc agcgccacc 
ctaagtaaa gaaattcgc cccgtctgc aagaagttt 
atgcaagat ccgatggaa gtttatgtg gacgatgaa 
gcgaaatta actctgcac ggacttcag caacattac 
gttaaacta aaggaaaat gagaaaaac aaaaaattg 
tttgagctg cttgatgtt ttggaattt aaccaggtt 
gttattttc gtcaaatca gtccaacga tgtattgct 
ttggcgcaa ctattgacg gaacagaat ttccccgcc 
attggcatt cacagaggt atgaaccaa gaagaacgt 
ctttcacgt taccaacaa tttaaagac ttccaaaag 
agaattttg gtcgccacg aatttgttt ggcagaggc 
atggatatt gaacgagta aatatcgtt tttaactac 
gacatgcct gaggattca gatacttac ttacatcgt 
gtggcaaga gctggtcgt tttggtact aaaggtctt 
gctgttact tttgtatca gaagaaagc gatgcgaaa 
atcttaaat gaagtgcaa gacaggttt gatgttaac 
attacggaa ttaccggac gaaattgat ctcagcaca 
tatattgaa ggacgatga
    mRNA sequence
    • >TC014413 RA
      tcgccatca ttcgtgttg gcgtcgttc acttcgcgt 
tgtcttgtt gtcgccaag aaacccctt aaaataaca 
gtcatcccg gttttttca agtcaaatt tttccagaa 
ttgcgttga aaacgcttt gaattcggt gtttttgtt 
gttattttc gtgttaaac ccggttttt aaaaagccg 
ctacaatgg ccgatgccg atgatcttt tagactacg 
aagacgaag aaaatccgg aacaaaccg ttgccgaga 
ccgtcgggg ccggtgacc agaagaagg gcatcaagg 
gtacttacg tgtccatcc acagttcag gcttcaggg 
attttctcc tgaaaccgg aaattttgc gcgccattg 
ttgactgcg gttttgagc acccgtctg aagtgcaac 
acgaatgca tcccacagg cagttcttg gtatggaca 
tcttgtgcc aagccaagt ccggtatgg gcaagactg 
cagtgttcg tcctggcga cgcttcagc agttggagc 
caaccgaaa acgtggttt acgtgcttg taatgtgcc 
acacgcgcg aattggcct tccaaatca gcaaagagt 
acgagcggt tcagtaaat acatgccaa acatcaaag 
tcggtgtgt ttttcggcg gcttgtcta tacaaaagg 
acgaggagg tgttgaaga ataattgcc cccatatcg 
tcgttggga caccgggac gcatcctcg ccttggtcc 
ggtccaaga aactcaatc tcaagcatc tcaaacatt 
tcattcttg acgagtgcg acaagatgc tggagttat 
tagatatga ggagggacg tgcaagaaa tttaccgta 
acacgccgc acggcaagc aagtaatga tgttcagcg 
ccaccctaa gtaaagaaa ttcgccccg tctgcaaga 
agtttatgc aagatccga tggaagttt atgtggacg 
atgaagcga aattaactc tgcacggac ttcagcaac 
attacgtta aactaaagg aaaatgaga aaaacaaaa 
aattgtttg agctgcttg atgttttgg aatttaacc 
aggttgtta ttttcgtca aatcagtcc aacgatgta 
ttgctttgg cgcaactat tgacggaac agaatttcc 
ccgccattg gcattcaca gaggtatga accaagaag 
aacgtcttt cacgttacc aacaattta aagacttcc 
aaaagagaa ttttggtcg ccacgaatt tgtttggca 
gaggcatgg atattgaac gagtaaata tcgttttta 
actacgaca tgcctgagg attcagata cttacttac 
atcgtgtgg caagagctg gtcgttttg gtactaaag 
gtcttgctg ttacttttg tatcagaag aaagcgatg 
cgaaaatct taaatgaag tgcaagaca ggtttgatg 
ttaacatta cggaattac cggacgaaa ttgatctca 
gcacatata ttgaaggac gatgattgc acagtcgtg 
gtgtaaggt gtatttact tgtgttttt cattaattt 
gagtgttgg gtaattttt tgttaccca cttagaata 
tttaagttt caatattcg acaagttcc attttttta 
tgtgaatgt attctaata aatgtcaca attataa

    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