Status
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Gene information
General information
TC008294 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_007419.2: 8065718..8071852
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
    		TC008294
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08156

    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 embryonic musculature and early development
    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     antenna not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    antenna shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    mandible shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs potentially size decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen cuticle posterior structure irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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: % (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
    • >TC008294 RA
      MQAASNGCV QNGAPSSSN GASENGHED TSNGPAVQL 
TQTSQDIVR LIGQYLKNE GLTRTADSL MAESGCRLD 
HPAAAKFRH HVMDGDWTK ADHDLQELQ NLIASSNSL 
LEMKFLLLE QKYLEYLED GRVLDALHV LRNELTPLQ 
HNTSRVHQL SSYMMCSNT QELHERTNW DGKGLKSRT 
ILMDKLQTY LPPSVMLPP SRLHTLLNQ ALELQTLHC 
SHHNTAQQI TLDNASLLV DHCCARDTF PTHTIQILN 
DHCDEVWFC QFSPDGTKL ATGSKDTNV IIWDVHPET 
CTLSLKKIL EGHNYGASY ISWSPDSVH LIACGPEES 
PEVWLWNIE TEKFLKVSQ SPEDALACC AWHKDGTKF 
VVGGIRGHF YQCDMEGTV IDSWEGVRV NGLWCRKDG 
KTVIASDTH HRIRGYIFE ELSDHQILQ EDHAIMSFT 
VDKNDKLAL LNVATQGVH LWDLNDKCL VRRYQGVTQ 
GHFTIHSTF GGANQDFIA SGSEDNQVY IWHIRNEQP 
IAVLTGHTR TVNCVAWNP VYPQMLVSV SDDCTVRVW 
GPKDKVPKP TVSLSSSDS SNNSTWNEM IS
    CDS sequence
    • >TC008294 RA
      atgcaagcg gccagcaac ggatgcgtg caaaatggg 
gccccctcg tccagcaac ggggcttcg gagaatgga 
cacgaggac acttccaat gggcccgcc gtgcaattg 
acacagact agtcaggac attgtcagg ctcatcggc 
caatacctc aaaaatgaa gggctaaca cgaacggcc 
gactcttta atggccgaa tccgggtgc cgtttggac 
caccccgca gctgccaaa tttcgccac cacgtaatg 
gacggtgac tggacaaag gcagatcac gatctgcaa 
gaattacag aatttaatt gcatcttcc aatagctta 
ttggaaatg aagttttta ttactcgaa cagaaatat 
ctggaatat ttagaagac gggagagtt ttggatgct 
ctccacgtg ttgcgaaat gaattaaca cctctacaa 
cacaatact tcaagagtg catcaactc tcaagctac 
atgatgtgt tcaaatacg caagaattg cacgaacgt 
actaattgg gatgggaag ggtttaaag tcccgaaca 
attttgatg gacaaactc caaacctat ctgcccccg 
agtgttatg ttaccgcct agccgacta catactttg 
ctcaatcaa gcgcttgag ttacaaact ttacattgt 
agccatcat aacacggca cagcagatc accctggac 
aacgcctcg ctcttagtt gaccactgc tgtgccaga 
gacacgttt cctactcat actatacaa atcttaaac 
gatcactgt gatgaggtc tggttctgc cagttttcg 
cccgatggg acgaagctg gcgaccgga tccaaagat 
accaatgtg attatttgg gacgtccac ccggagact 
tgcacgctc tccctgaaa aaaatcctc gaaggacac 
aattacgga gcttcgtac atatcgtgg agtcccgat 
tcggttcat ttaattgcg tgcggtccg gaggaaagt 
cccgaggtt tggttgtgg aatatcgaa actgaaaaa 
ttcctcaaa gtctcgcaa tctcccgaa gatgctttg 
gcgtgctgt gcatggcat aaagacggt acaaaattt 
gtggtgggt gggattaga ggtcatttt tatcagtgt 
gatatggaa ggtactgtc atagattcg tgggaggga 
gtccgtgtg aacggtttg tggtgtcgg aaagacggg 
aaaacggtc attgcgtcg gatacacat caccggatc 
aggggctac atctttgag gagctttca gaccatcaa 
atattgcaa gaagatcac gctatcatg tcgttcacc 
gttgacaaa aacgacaaa cttgcgctt ttaaacgtt 
gccacacaa ggtgttcat ctatgggac ttaaacgat 
aaatgctta gttagacga taccaagga gttactcag 
ggtcatttt acaatacat tcaactttt ggaggagct 
aaccaggac tttatcgcc agtgggagt gaagacaat 
caggtctac atctggcat attcgaaac gagcaaccc 
attgctgtt ttaactggc catacaaga acagtaaac 
tgtgttgcc tggaatcct gtttatcca caaatgctt 
gtttcagtt tctgacgac tgtacagtt agggtatgg 
ggaccaaaa gataaggtg cctaaacca acagtgtct 
ttatctagt agcgattca agtaataac agcacatgg 
aacgaaatg atttcatag
    mRNA sequence
    • >TC008294 RA
      gttatatta tataaaaaa cggaaaaaa tgtttttgc 
aaacttgga aagctattt ttggaacaa aggtaattg 
acctagttc gctggttat gcaaccagg aattcacac 
ttgtggttg gttatttta ttgcttgaa caacggtgt 
tttaaggtt ggtaacggt aagttcggg tggttgttg 
ttgtctctt tctggtcgt caaatttcc tttggttct 
tcttcacgt ggcaatatt ttcaaatca aatgttaat 
gtggaacaa agatgagga tataacgtg tatttagtg 
gaggattgg taaataaag agcacctca gcggatgtg 
taccgtctg acatttcag ctgttcagc ccgtttgtt 
gttgttagt ggaatatca actcccagc gtttattat 
atggactgt tgaggtcaa gccaccagc tgttttctg 
ggttgttgg aatttgaac catttgtcc attgaacaa 
acagttggt gagcgttgg ttcagctgt aattcagct 
gatgtttgt tgtggggtg gtgcagttt ctaggattg 
tcaatttcc tcaaaaaat tcacgtgat tttccactc 
aaagaatga agagtggtt gaaaacaac atctccatg 
gtcaacaat cgaaatctg cgtgattac cagtgtgac 
gtaataaat ggatctgtg aaaacaaag agcccgttt 
taattaatg ttaatcgcg tctaaagta aacgtgatc 
gtggaaagt gaggaggaa aagtgcaaa aataagtct 
ggcctctaa tagtgattc atccgggga cgacggtgg 
acagccgcc tcgtaaaaa aacccgaag agacaatag 
tattgcgat tgacaccac cataatgca agcggccag 
caacggatg cgtgcaaaa tggggcccc ctcgtccag 
caacggggc ttcggagaa tggacacga ggacacttc 
caatgggcc cgccgtgca attgacaca gactagtca 
ggacattgt caggctcat cggccaata cctcaaaaa 
tgaagggct aacacgaac ggccgactc tttaatggc 
cgaatccgg gtgccgttt ggaccaccc cgcagctgc 
caaatttcg ccaccacgt aatggacgg tgactggac 
aaaggcaga tcacgatct gcaagaatt acagaattt 
aattgcatc ttccaatag cttattgga aatgaagtt 
tttattact cgaacagaa atatctgga atatttaga 
agacgggag agttttgga tgctctcca cgtgttgcg 
aaatgaatt aacacctct acaacacaa tacttcaag 
agtgcatca actctcaag ctacatgat gtgttcaaa 
tacgcaaga attgcacga acgtactaa ttgggatgg 
gaagggttt aaagtcccg aacaatttt gatggacaa 
actccaaac ctatctgcc cccgagtgt tatgttacc 
gcctagccg actacatac tttgctcaa tcaagcgct 
tgagttaca aactttaca ttgtagcca tcataacac 
ggcacagca gatcaccct ggacaacgc ctcgctctt 
agttgacca ctgctgtgc cagagacac gtttcctac 
tcatactat acaaatctt aaacgatca ctgtgatga 
ggtctggtt ctgccagtt ttcgcccga tgggacgaa 
gctggcgac cggatccaa agataccaa tgtgattat 
ttgggacgt ccacccgga gacttgcac gctctccct 
gaaaaaaat cctcgaagg acacaatta cggagcttc 
gtacatatc gtggagtcc cgattcggt tcatttaat 
tgcgtgcgg tccggagga aagtcccga ggtttggtt 
gtggaatat cgaaactga aaaattcct caaagtctc 
gcaatctcc cgaagatgc tttggcgtg ctgtgcatg 
gcataaaga cggtacaaa atttgtggt gggtgggat 
tagaggtca tttttatca gtgtgatat ggaaggtac 
tgtcataga ttcgtggga gggagtccg tgtgaacgg 
tttgtggtg tcggaaaga cgggaaaac ggtcattgc 
gtcggatac acatcaccg gatcagggg ctacatctt 
tgaggagct ttcagacca tcaaatatt gcaagaaga 
tcacgctat catgtcgtt caccgttga caaaaacga 
caaacttgc gcttttaaa cgttgccac acaaggtgt 
tcatctatg ggacttaaa cgataaatg cttagttag 
acgatacca aggagttac tcagggtca ttttacaat 
acattcaac ttttggagg agctaacca ggactttat 
cgccagtgg gagtgaaga caatcaggt ctacatctg 
gcatattcg aaacgagca acccattgc tgttttaac 
tggccatac aagaacagt aaactgtgt tgcctggaa 
tcctgttta tccacaaat gcttgtttc agtttctga 
cgactgtac agttagggt atggggacc aaaagataa 
ggtgcctaa accaacagt gtctttatc tagtagcga 
ttcaagtaa taacagcac atggaacga aatgatttc 
atagtgact acttacaaa gactgagcg agaaaacat 
catctctta agtttattt attggctat acagcgata 
aggatttaa ggtaggagt caaaattgt atctgtttg 
gaatagtgc tccaatgag tgtaattaa gattaaagc 
ttttataaa cgaggaggt ttatcaata atgttatta 
catagtgat attaacaca gacaattat ttaaaatag 
agtgtaagt aattaaaag gaatgtatc ttatctcca 
aataaa

    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