Status
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Gene information
General information
TC002647 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_007418.3: 16678219..16699615
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
    		TC002647
    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 *
    {{ 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_00419

    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: 0.0% (includes death as pupa, adult)

    Fertility
    previtellogenic egg chamber number decreased - Number of animals showing the phenotype: 4
    vitellogenic egg chamber not present - Number of animals showing the phenotype: 4
    previtellogenic egg chamber shape irregular - Number of animals showing the phenotype: 4
    previtellogenic egg chamber sometimes segmentation/division not present - Number of animals showing the phenotype: 2

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    adult lethality immediately after eclosion - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection

    remarks: later than schedule, hours 24
    Pupal morphology
    remarks: later than schedule, hours 24
    Adult morphology
    remarks: later than schedule, hours 24
    Fertility
    egg production: number no/almost no eggs -
    tropharium shape irregular - Number of animals showing the phenotype: 4

    tropharium shortened - Number of animals showing the phenotype: 4
    mature egg degenerated - Number of animals showing the phenotype: 4
    remarks: later than schedule, hours 24
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002647 RA
      MSKQKDLRF LVYLAKIAY PRHNSYCFI IYMIVNYCD 
ILKQQQIFT LRGVSSEFL NNFVGGTVL DIDNTIVAN 
DNVEQTCIK YVVVKDTTR KVNLITKKF DTKFVALLS 
YNLLYNLKG AITCSFKNC QGNLQFADE VELSLVNSA 
YTYLADLRR AVFPFMKQK KNKFLPVFL LEGRRGSGK 
SLLVKCLAS TQGMHLYTI SNFDVTATT YAQNETKLR 
NSFFAAKMA APSILQIKN FENFGKNNE GQYDERLIS 
YFTTEVKTL FESNSFPLI LICCSSDKN IPIELKRTF 
LKTFEIKAP NDQEREKIL NWILKSQDV TTDIDMSEI 
ANKTHGFLF EDLQTLVHY AMTDFTNEK KSAERCVVS 
QDYFFRALD LMQSNYSES LGAPRVPQV KWSDVGGLT 
EVKEEIIKT IKLPLKHSE LLKTTGLKR SGILLYGPP 
GTGKTLIAK AVATECGLC FLSVKGPEL LNMYVGQSE 
QNVREVFEK ARDASPCII FFDELDSLA PNRGASGDS 
GGVMDRVVS QLLAEMDGL NQTGTVFII GATNRPDLI 
DPALLRPGR FDKLLYVGP CIDRDSKIA VLTALTRKF 
TLENDSLIA EAVDLCPEN FSGADFYGV CSSAWMAAV 
RRFVKTLEE GKNDRNSAT ASDVIVTLD DFKLAIKTI 
KPSIRQEDL EYYNKLKSD FK
    CDS sequence
    • >TC002647 RA
      atgagtaag caaaaagac ctccggttt ttggtgtat 
ttggccaaa attgcctac ccaagacac aattcgtac 
tgttttatc atctacatg attgtaaac tactgtgat 
attttgaag caacagcaa atatttacg ttgcgaggt 
gttagtagc gaatttttg aacaacttt gttggtggg 
actgttttg gacattgat aacacgata gttgcgaat 
gataacgtt gaacaaact tgtattaaa tacgttgtc 
gttaaagac accacgagg aaggttaat ttaattacg 
aaaaaattt gacaccaaa tttgtagcg ttgttgagt 
tacaatttg ttgtataac ttgaagggg gctataact 
tgcagtttt aagaactgt cagggaaac ctccaattt 
gccgatgaa gtcgagttg tctttggtc aattcggct 
tacacgtat ttggcggac ttacggaga gctgttttt 
ccgtttatg aagcaaaag aaaaataaa tttttgccg 
gtttttcta ctcgaaggg cgcagaggt agtggcaaa 
agtttgttg gttaaatgt ttggcttcc acgcaaggg 
atgcatttg tacacaatc agtaatttt gacgttact 
gcgaccact tacgcccaa aatgagacg aaattgcga 
aatagtttt tttgctgcg aaaatggcc gccccctcc 
atcttgcaa ataaagaat tttgagaat tttgggaaa 
aataacgaa ggacaatat gacgaacgt ctgattagt 
tattttaca actgaagtc aaaactctc ttcgaaagc 
aattcattt ccgttgatt ctaatctgc tgtagcagc 
gataaaaat attccgatc gaactcaaa cgaactttt 
ctgaaaact ttcgaaata aaagcacca aacgaccaa 
gaaagagaa aaaatatta aactggatt ttaaaaagc 
caagatgta acgactgat attgacatg agcgagatt 
gccaacaaa acgcacggt tttttgttc gaggacttg 
caaaccttg gttcattat gctatgaca gatttcact 
aacgaaaaa aaatcagcg gagagatgt gttgtgtct 
caggattat tttttccgg gctttggac ttgatgcaa 
tcgaattat agcgagagt ttgggggcg ccaagagtg 
cctcaagtc aagtggtca gacgttggc ggtttaacc 
gaagtgaag gaagaaata attaaaacg ataaaattg 
ccgctgaaa cactccgag cttttgaaa acgaccgga 
ttgaagcga tccgggatt ttgctttac ggccctccg 
ggcaccgga aaaactcta atcgccaaa gcggtcgcc 
accgaatgc ggtttatgt tttttgtca gtcaaaggc 
cccgaattg ttgaatatg tatgtgggc cagtcggag 
caaaacgtg cgcgaggtg tttgagaag gcgcgtgac 
gcctccccg tgcataatt tttttcgac gaactggac 
tctctggcc cccaatcgg ggcgcttcc ggtgattcc 
ggcggcgtg atggacagg gtggtttcg cagcttttg 
gcggaaatg gacggtttg aatcaaacc ggcactgtt 
tttatcata ggagcaaca aataggcca gacttgatc 
gatccggca cttctaaga ccgggaaga tttgataag 
ttgctttat gtgggaccg tgcatcgat cgcgattcg 
aaaattgcc gttctgact gccttaaca cgaaagttt 
acgctggaa aatgacagt ttgatagcg gaagcggtt 
gatttgtgc ccggaaaat ttcagtggc gccgatttt 
tatggcgtt tgctcgagt gcatggatg gctgcagta 
aggcgattt gtgaagact ttggaggaa gggaaaaat 
gacagaaat agcgccaca gcaagcgac gtaatcgtg 
actctcgac gactttaag ctcgctatc aagaccatc 
aagccatca attaggcaa gaagacttg gaatactat 
aataaactg aagtccgat tttaaataa
    mRNA sequence
    • >TC002647 RA
      agagggttt taagttgat aaataacgc acaaagtgg 
cgttagggg tgccctcac attttttaa aatattcta 
gttattttg tccccgcta ggttgtgca cgtcaagtt 
tgacagcga ttctaaccc aacttttgc aactccaca 
ggtgttaac aaagtgttc taataataa acaattatg 
acttaattg tggtataaa gtgaccagt tttgttaaa 
tttaactta agtgagata aaaaatgca actgacatt 
gtgttggca agttgagta gtccaaaat gagtaagca 
aaaagacct ccggttttt ggtgtattt ggccaaaat 
tgcctaccc aagacacaa ttcgtactg ttttatcat 
ctacatgat tgtaaacta ctgtgatat tttgaagca 
acagcaaat atttacgtt gcgaggtgt tagtagcga 
atttttgaa caactttgt tggtgggac tgttttgga 
cattgataa cacgatagt tgcgaatga taacgttga 
acaaacttg tattaaata cgttgtcgt taaagacac 
cacgaggaa ggttaattt aattacgaa aaaatttga 
caccaaatt tgtagcgtt gttgagtta caatttgtt 
gtataactt gaagggggc tataacttg cagttttaa 
gaactgtca gggaaacct ccaatttgc cgatgaagt 
cgagttgtc tttggtcaa ttcggctta cacgtattt 
ggcggactt acggagagc tgtttttcc gtttatgaa 
gcaaaagaa aaataaatt tttgccggt ttttctact 
cgaagggcg cagaggtag tggcaaaag tttgttggt 
taaatgttt ggcttccac gcaagggat gcatttgta 
cacaatcag taattttga cgttactgc gaccactta 
cgcccaaaa tgagacgaa attgcgaaa tagtttttt 
tgctgcgaa aatggccgc cccctccat cttgcaaat 
aaagaattt tgagaattt tgggaaaaa taacgaagg 
acaatatga cgaacgtct gattagtta ttttacaac 
tgaagtcaa aactctctt cgaaagcaa ttcatttcc 
gttgattct aatctgctg tagcagcga taaaaatat 
tccgatcga actcaaacg aacttttct gaaaacttt 
cgaaataaa agcaccaaa cgaccaaga aagagaaaa 
aatattaaa ctggatttt aaaaagcca agatgtaac 
gactgatat tgacatgag cgagattgc caacaaaac 
gcacggttt tttgttcga ggacttgca aaccttggt 
tcattatgc tatgacaga tttcactaa cgaaaaaaa 
atcagcgga gagatgtgt tgtgtctca ggattattt 
tttccgggc tttggactt gatgcaatc gaattatag 
cgagagttt gggggcgcc aagagtgcc tcaagtcaa 
gtggtcaga cgttggcgg tttaaccga agtgaagga 
agaaataat taaaacgat aaaattgcc gctgaaaca 
ctccgagct tttgaaaac gaccggatt gaagcgatc 
cgggatttt gctttacgg ccctccggg caccggaaa 
aactctaat cgccaaagc ggtcgccac cgaatgcgg 
tttatgttt tttgtcagt caaaggccc cgaattgtt 
gaatatgta tgtgggcca gtcggagca aaacgtgcg 
cgaggtgtt tgagaaggc gcgtgacgc ctccccgtg 
cataatttt tttcgacga actggactc tctggcccc 
caatcgggg cgcttccgg tgattccgg cggcgtgat 
ggacagggt ggtttcgca gcttttggc ggaaatgga 
cggtttgaa tcaaaccgg cactgtttt tatcatagg 
agcaacaaa taggccaga cttgatcga tccggcact 
tctaagacc gggaagatt tgataagtt gctttatgt 
gggaccgtg catcgatcg cgattcgaa aattgccgt 
tctgactgc cttaacacg aaagtttac gctggaaaa 
tgacagttt gatagcgga agcggttga tttgtgccc 
ggaaaattt cagtggcgc cgattttta tggcgtttg 
ctcgagtgc atggatggc tgcagtaag gcgatttgt 
gaagacttt ggaggaagg gaaaaatga cagaaatag 
cgccacagc aagcgacgt aatcgtgac tctcgacga 
ctttaagct cgctatcaa gaccatcaa gccatcaat 
taggcaaga agacttgga atactataa taaactgaa 
gtccgattt taaataaaa attgtgtca caaccttgg 
ccgcacatt gtgcacaca gtaaataga aaataaaag 
tgcaaacag caaaggtca cggctggtg gttggagca 
gtttgttct acaatcaat taattgttg gtttttatg 
taaaaaatg gaatgtgtc tgggttaat aaatgatga 
gttggtac

    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