Status
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Gene information
General information
TC010856 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_007416.3: 5505991..5515095
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
    		TC010856
    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
    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_04922

    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: 20.0% (includes death as pupa, adult)

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

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 10.0% (includes death as larva, prepupa, pupa, adult)

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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010856 RA
      MFPEDTFAI CDPRRDEDC RKNGDKEVH PKINGNRRN 
SCAIVTNTC HTCNGYYGP CFDDPVCST CHAFLYPNT 
APIMDRPST FQRSSDSDS GNDEPVDNS QESMPNVPL 
YEDFVGKMA PVRVDTLTK EIQRLSNVT HHVTDLNLE 
LFPPEVLMH MFKYLDEIS LWSIGQVCS RWREILFMC 
VKLERWRDF VRLRWPLLP LYDYEQDWY ELYTAMMLS 
SCCFKCIKQ MAAQKLPSH WEDSSWRRH RLRTELKAM 
RSDPLSGID AFPLDAHCC HWQATIEGP AGSPYEGGL 
FFLYIQVPT TYPLDPPLV RFITKIFHP NVSRHGDIG 
IDSIHHNWS LALTLSKLL ISIQSLLTD PFCDVCMEP 
EIGNMFLKN REAFELEAK MWTCKHAMH DMLPH
    CDS sequence
    • >TC010856 RA
      atgtttcct gaagatacg tttgcaatt tgtgatcca 
cgacgtgat gaagactgt cgcaagaac ggggacaag 
gaggtgcac ccgaaaatc aacggaaat cggagaaat 
tcctgcgcg attgtaaca aatacgtgc cacacgtgc 
aatgggtat tatgggccg tgctttgac gaccctgtg 
tgctccacc tgccacgct tttctgtac cccaacact 
gcccccatt atggacagg ccctcaacc ttccaaaga 
tccagtgat agtgattcg ggcaatgac gagccggtg 
gataacagt caggaaagc atgcccaac gtccccctt 
tacgaggac ttcgtgggc aaaatggcc cccgtaagg 
gtggatacc ctgactaaa gaaatacaa aggctctca 
aacgtcact catcacgta actgacttg aatttagag 
ctatttcca ccggaagtt cttatgcat atgtttaaa 
tatttagac gaaatttcg ctgtggagc ataggtcaa 
gtttgtagc aggtggcgg gagatactt ttcatgtgt 
gtgaagctc gagcgttgg cgagacttt gtgcgctta 
aggtggccg ttgttgcct ttatatgat tacgaacaa 
gactggtat gaactttat acagccatg atgcttagc 
tcgtgttgt tttaaatgt atcaaacaa atggccgct 
caaaaattg ccctcgcat tgggaggac agttcctgg 
agacgacac cgtttaaga accgagctt aaagcaatg 
aggagtgat cctctcagt gggattgat gcgtttcca 
cttgatgct cattgttgc cattggcag gcgacgatt 
gagggacca gcgggcagt ccttacgag ggcggattg 
ttctttctg tacattcaa gtaccaaca acttaccca 
ttagatcct ccacttgtt aggtttatc acgaaaatt 
tttcatccc aacgtttca agacacgga gacattggt 
atcgattca attcatcac aactggtca ttagctctc 
acacttagc aaattgttg atttctata cagtcactt 
cttaccgac cctttctgc gatgtttgt atggaaccc 
gaaataggg aatatgttc ctcaaaaac agggaggcg 
ttcgaactt gaagctaag atgtggact tgcaaacat 
gcaatgcat gatatgttg ccacactga
    mRNA sequence
    • >TC010856 RA
      taaaaaata ataaatctg aattaagga aactaaacc 
gcacggaaa tcgaacatt taaatgatt gcatgtgaa 
gtaacagcg attttaagg taaagtgtg gcaatagtg 
agtgaacaa ctagcccaa aatacccac ctgaaactt 
gactaattg attgcattt tcctgtatt tcggtgcaa 
attagcatt aatttgcat tgaatgtgg gtgttttaa 
tttaccaaa actcagggg agagatgaa tgcattggg 
aatttgata aattttcta cgaagtggg gataataca 
aattagttt tatagactc ttctaacct cgtgtgttg 
tggtccact gtcatgaac ataatacac tcaaccttg 
tcgctctct taagaatat ttgtttgtt taacaaaag 
tgactaatc cgaaatgac catttacgg caagttagt 
gcaaataat attagtgaa ttattttaa gtgaagtaa 
gtgccggtt ttagtgata ctttgagtt aaaaacgct 
tctgtttca ggaagatgt gttcgggtg ctgtgaaca 
tcccaatta aatctccat atttttaat tattaatta 
agtatgaat ttatttttg taaataaag tttattaac 
ttaatgccg tcataaatt gataatgtt attattatt 
gtggttttt gttagttat ggaagagta gaacagaaa 
attcgataa gttaattat tttttaata atttacact 
cggttttat aaccgttga aacgtattt atgtttggt 
tataacctg cataacctt acttttgga aatgtttta 
ttttggaaa aatcgcatt tgcatgtgc tgttgtttt 
tttcctgtc aatgtcaaa caaatttta atttgacac 
aattcacat caaaattgg gaatgcgct agaaaaaac 
catgtttcc tgaagatac gtttgcaat ttgtgatcc 
acgacgtga tgaagactg tcgcaagaa cggggacaa 
ggaggtgca cccgaaaat caacggaaa tcggagaaa 
ttcctgcgc gattgtaac aaatacgtg ccacacgtg 
caatgggta ttatgggcc gtgctttga cgaccctgt 
gtgctccac ctgccacgc ttttctgta ccccaacac 
tgcccccat tatggacag gccctcaac cttccaaag 
atccagtga tagtgattc gggcaatga cgagccggt 
ggataacag tcaggaaag catgcccaa cgtccccct 
ttacgagga cttcgtggg caaaatggc ccccgtaag 
ggtggatac cctgactaa agaaataca aaggctctc 
aaacgtcac tcatcacgt aactgactt gaatttaga 
gctatttcc accggaagt tcttatgca tatgtttaa 
atatttaga cgaaatttc gctgtggag cataggtca 
agtttgtag caggtggcg ggagatact tttcatgtg 
tgtgaagct cgagcgttg gcgagactt tgtgcgctt 
aaggtggcc gttgttgcc tttatatga ttacgaaca 
agactggta tgaacttta tacagccat gatgcttag 
ctcgtgttg ttttaaatg tatcaaaca aatggccgc 
tcaaaaatt gccctcgca ttgggagga cagttcctg 
gagacgaca ccgtttaag aaccgagct taaagcaat 
gaggagtga tcctctcag tgggattga tgcgtttcc 
acttgatgc tcattgttg ccattggca ggcgacgat 
tgagggacc agcgggcag tccttacga gggcggatt 
gttctttct gtacattca agtaccaac aacttaccc 
attagatcc tccacttgt taggtttat cacgaaaat 
ttttcatcc caacgtttc aagacacgg agacattgg 
tatcgattc aattcatca caactggtc attagctct 
cacacttag caaattgtt gatttctat acagtcact 
tcttaccga ccctttctg cgatgtttg tatggaacc 
cgaaatagg gaatatgtt cctcaaaaa cagggaggc 
gttcgaact tgaagctaa gatgtggac ttgcaaaca 
tgcaatgca tgatatgtt gccacactg aatatttat 
ttatctatt gtttttttt tcgcaaaat tatgattga 
gttaatcaa caacatgcc gtgcatgta tgttgccgc 
aaagggcat ttgttttta tttaatttt tttttgcta 
aatttttat ggtggcaat gtcaattat gctttttat 
ttctcaaaa tttattttg atttgtaag aattgagaa 
catgccatg catgatgtg ttggcatac tcatatata 
tttatttta tttactttt attttttgc aaaatcatg 
tttgtgaca aggccaatt tattgatat tttacctta 
tttgttaca ttatatttt ttgtgattt gtgttcaat 
aaacctgtt tcttaaac

    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