Status
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Gene information
General information
TC000825 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: 6287752..6292038
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
    		TC000825
    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_08992

    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: 70.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (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: % (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
    • >TC000825 RA
      MSIQDKVLM RKIKKREKQ KLKLVQLKE KEKNKVVEE 
EQDEEGFVP QERKGAKRG QNDDTGPAR KKKKKNRKK 
KDLDLEQSH ESDKESEKE DDEENNDEE EPQEAQTEG 
DDEQNKLPG AETTLEILS NCTFDSLKN KVCENTLKA 
IADMGFTTL TEIQARSIP PLLEGRDLV GAAKTGSGK 
TLAFLIPAV ELIYKLKFM PRNGTGVII ISPTRELSM 
QTFGVLKEL MKYHHHTYG LVMGGTSRQ TEAQKLSKG 
INILVATPG RLLDHMQNT PDFLFKNLQ CLVIDEADR 
ILDIGFEEE MKQIINLLP KRRQTMLFS ATQTKKTEA 
LTSLALKKE PIYVGVDDA KSEATVTGL EQGYVVCPS 
EKRLLVLFT FLKKNRKKK VMVFFSSCM SVKFHHELF 
NYIDLPVMC IHGKQKQAK RTTTFFQFC NAESGILLC 
TDVAARGLD IPAVDWIVQ YDPPDDPKE YIHRVGRTA 
RGEGSSGHA LLILRPEEL GFLRYLKQA KVPLNEFEF 
SWNKIADIQ LQLENLIGK NYFLNMSAK EAFKAYVRA 
YDSHHLKTI FDISTLDLA KVGLSFGFK VPPAVDLKV 
TVKKSERPS KRKGGGGFG YYKNLNAMP SKDYKKNVV 
YRQPKRKGG SDKRQFSR
    CDS sequence
    • >TC000825 RA
      atgtctatt caggataag gtgctaatg agaaaaatt 
aaaaaacga gaaaaacag aaattaaaa cttgtgcaa 
ctgaaagag aaagagaaa aataaggtg gttgaggaa 
gaacaggat gaggagggt tttgttccc caggagcga 
aagggggcc aaaagggga caaaacgat gatacaggg 
cctgctcgg aaaaaaaag aagaagaat aggaaaaag 
aaagatcta gatttagaa cagagccat gaaagtgac 
aaagaaagc gaaaaagaa gacgatgag gaaaataac 
gacgaggaa gaaccccaa gaggcacaa accgaagga 
gatgatgaa caaaataaa cttcctggt gccgaaacc 
acgttggaa attctaagt aactgcacg tttgattct 
cttaagaac aaagtttgt gaaaacacc cttaaagct 
attgctgat atgggcttc acaacactt actgaaatt 
caagcacga tcaattcct ccattactg gaaggccgc 
gatttagtc ggggctgct aaaacagga tctggaaaa 
acgttggct tttcttata ccagcagtc gagttgatt 
tataaactg aaatttatg ccaagaaat ggtactggt 
gttattatt atttcacca acaagagaa ttgtcaatg 
caaacgttc ggggtttta aaagagttg atgaaatat 
caccaccat acttatggc ttggtcatg ggtgggact 
agtaggcaa acagaggct cagaaattg tccaaaggg 
attaatata ctagtggct acacctgga cgtcttttg 
gatcacatg caaaacact cctgatttt ctttttaag 
aatttacag tgtcttgtg atcgacgaa gctgatcga 
attttagat attggtttt gaggaggaa atgaaacag 
attattaac cttctgcca aaacggaga caaacaatg 
ttgttcagt gccacacaa acgaagaaa actgaagcc 
ttgacgtct ctagcgttg aaaaaagag ccgatttat 
gtcggtgtg gacgacgct aaaagcgag gccactgtt 
acaggactt gagcaaggc tacgttgtt tgtccttct 
gaaaaaaga cttttggtc ttgttcact tttctgaag 
aagaatcgc aagaagaag gtgatggtg tttttcagc 
tcttgcatg tctgtgaaa ttccatcac gagttgttt 
aactacatt gacttgcca gtgatgtgc attcatggg 
aagcagaaa caggcgaag cggacgacc acatttttc 
cagttctgt aacgcagaa tctggaatt ttgctctgt 
actgacgtc gcagcgaga ggtttggac attccagcc 
gttgactgg atcgtgcaa tatgaccct ccagatgac 
cctaaagag tacattcac agagttggc agaactgca 
agaggtgaa ggaagcagt ggtcatgct ttgctaatt 
ttaagacct gaggaactt ggtttcctt aggtatcta 
aaacaggct aaagtaccg ttgaatgag tttgagttt 
agttggaat aaaattgcc gatatccag ttacagttg 
gagaattta attggcaaa aattatttt ttgaacatg 
tcggcgaaa gaagcgttt aaggcttat gtgagagcg 
tacgactcg catcatttg aagaccatt tttgatatc 
agtacgctt gatttggcg aaggttggg ttgtcgttt 
gggtttaaa gtaccacca gctgtggat ttaaaagtt 
actgttaaa aaatctgaa cgcccttct aagagaaag 
ggtgggggc ggctttggt tactacaag aatttgaat 
gcaatgccg agtaaagat tacaagaag aatgttgtc 
tacagacaa cctaaacgc aagggcggc tcagataaa 
cgccagttt tcaagatga
    mRNA sequence
    • >TC000825 RA
      aacctcaaa ttctggaaa gttcaagct cctcacacg 
tgttttatt ttttgtgtt aaaatgtct attcaggat 
aaggtgcta atgagaaaa attaaaaaa cgagaaaaa 
cagaaatta aaacttgtg caactgaaa gagaaagag 
aaaaataag gtggttgag gaagaacag gatgaggag 
ggttttgtt ccccaggag cgaaagggg gccaaaagg 
ggacaaaac gatgataca gggcctgct cggaaaaaa 
aagaagaag aataggaaa aagaaagat ctagattta 
gaacagagc catgaaagt gacaaagaa agcgaaaaa 
gaagacgat gaggaaaat aacgacgag gaagaaccc 
caagaggca caaaccgaa ggagatgat gaacaaaat 
aaacttcct ggtgccgaa accacgttg gaaattcta 
agtaactgc acgtttgat tctcttaag aacaaagtt 
tgtgaaaac acccttaaa gctattgct gatatgggc 
ttcacaaca cttactgaa attcaagca cgatcaatt 
cctccatta ctggaaggc cgcgattta gtcggggct 
gctaaaaca ggatctgga aaaacgttg gcttttctt 
ataccagca gtcgagttg atttataaa ctgaaattt 
atgccaaga aatggtact ggtgttatt attatttca 
ccaacaaga gaattgtca atgcaaacg ttcggggtt 
ttaaaagag ttgatgaaa tatcaccac catacttat 
ggcttggtc atgggtggg actagtagg caaacagag 
gctcagaaa ttgtccaaa gggattaat atactagtg 
gctacacct ggacgtctt ttggatcac atgcaaaac 
actcctgat tttcttttt aagaattta cagtgtctt 
gtgatcgac gaagctgat cgaatttta gatattggt 
tttgaggag gaaatgaaa cagattatt aaccttctg 
ccaaaacgg agacaaaca atgttgttc agtgccaca 
caaacgaag aaaactgaa gccttgacg tctctagcg 
ttgaaaaaa gagccgatt tatgtcggt gtggacgac 
gctaaaagc gaggccact gttacagga cttgagcaa 
ggctacgtt gtttgtcct tctgaaaaa agacttttg 
gtcttgttc acttttctg aagaagaat cgcaagaag 
aaggtgatg gtgtttttc agctcttgc atgtctgtg 
aaattccat cacgagttg tttaactac attgacttg 
ccagtgatg tgcattcat gggaagcag aaacaggcg 
aagcggacg accacattt ttccagttc tgtaacgca 
gaatctgga attttgctc tgtactgac gtcgcagcg 
agaggtttg gacattcca gccgttgac tggatcgtg 
caatatgac cctccagat gaccctaaa gagtacatt 
cacagagtt ggcagaact gcaagaggt gaaggaagc 
agtggtcat gctttgcta attttaaga cctgaggaa 
cttggtttc cttaggtat ctaaaacag gctaaagta 
ccgttgaat gagtttgag tttagttgg aataaaatt 
gccgatatc cagttacag ttggagaat ttaattggc 
aaaaattat tttttgaac atgtcggcg aaagaagcg 
tttaaggct tatgtgaga gcgtacgac tcgcatcat 
ttgaagacc atttttgat atcagtacg cttgatttg 
gcgaaggtt gggttgtcg tttgggttt aaagtacca 
ccagctgtg gatttaaaa gttactgtt aaaaaatct 
gaacgccct tctaagaga aagggtggg ggcggcttt 
ggttactac aagaatttg aatgcaatg ccgagtaaa 
gattacaag aagaatgtt gtctacaga caacctaaa 
cgcaagggc ggctcagat aaacgccag ttttcaaga 
tgagaaaat attttaagt gttttagat taatatcat 
atattttac attatggat tatgataat aaatacttt 
ggactctt

    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