Status
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Gene information
General information
TC002315 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.

NW_015451937.1: 892046..970532
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
    		TC002315
    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_03352

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (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%

    abdomen musculature specific subset dorsal partiallynot present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    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
     head capsule size decreased - Penetrance (percentage of animals/eggs on slide): more than 80%

    head bristle pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    head bristle partially not present - Penetrance (percentage of animals/eggs on slide): more than 80%
    labrum not present - Penetrance (percentage of animals/eggs on slide): more than 80%

    dorsal ridge row irregular - 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: % (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
    • >TC002315 RA
      MIMEMTNES AAVGRWYES PRTGTSASP GQGTLESGN 
SDINTSVAE HMGAFFLDP SGTQRAARY YHQSMHSPY 
GTVASHVSA SRMSSGQVC RSHFHAPLH PWLSDGTKP 
LGHSGWVPF GGGDPDKSQ SPSSAPGQP HNIFSFPPT 
PPKDSTPDS VAPTAGAEY VAAAMGAFM HGGGGGDNP 
QSCALDVKP TAVGANANS KQREGSDYE GGTAGMFNG 
NFESSYGSA YGHGIHGAA YSPQNKQHL GAAGQGAQS 
PNKPRNKSR TSAEGRECV NCGATSTPL WRRDGTGHY 
LCNACGLYY KMNGQNRPL IKPKRRLSL QSAARRAGT 
SCANCKTTT TTLWRRNQN GEPVCNACG LYYKLHNVN 
RPLTMKKEG IQTRNRKLS SKSKKKKSG GSCLSLGGM 
MGDMMKPLD SSKGGFGGG GFGGGMGGG HPHLNAALH 
PHHAMSHWY QHSTHPQGF VSGPPPPAP PPTASYHHH 
MSSLSAAGL GLASNGMTS WRSEYT
    CDS sequence
    • >TC002315 RA
      atgattatg gagatgacg aacgagtct gcggcggtc 
ggccggtgg tacgaatcg cccaggact ggaacttcg 
gcgagtcct ggtcaaggg actctcgaa agtggtaat 
tcggacata aatactagt gttgccgaa catatgggc 
gcgtttttc cttgaccca tcgggcacg caaagggcc 
gcgagatac taccatcag agcatgcat tcgccctac 
gggacggtc gccagccac gtttcagcg tctcggatg 
tcttcgggt caagtgtgc cggtcacac ttccacgcg 
cccctccac ccttggcta tcggacggc acgaagccc 
ctcggccac tcgggttgg gtgccgttc ggtggcggc 
gatccggac aaatcgcag tcgccgagt tccgccccc 
ggccagccg cacaacatc ttctcgttc cccccgacg 
ccgccaaag gacagcacg ccggacagc gtggcgccg 
acggcgggc gcagagtac gtggcggcg gcgatgggc 
gccttcatg cacgggggc ggcggcggc gacaacccc 
cagagctgc gccctcgac gtcaagccg acggccgtc 
ggagcgaac gccaacagc aaacagcgc gaaggtagt 
gactatgaa gggggcact gccggcatg tttaatggt 
aactttgaa agctcgtac gggtctgcg tatggccac 
ggtattcac ggggccgcg tactcgccc cagaacaag 
cagcatctg ggggctgcc ggacagggc gcgcaatcg 
cctaacaaa ccacgcaac aagtcgaga accagcgcc 
gagggtagg gagtgcgtg aattgtggt gcaacgagc 
acgccactg tggcgacgt gacggcaca ggccactac 
ctctgcaat gcgtgtgga ttgtactac aagatgaat 
ggacaaaat aggccactc atcaaaccc aaaagaaga 
ctgagttta caaagcgct gccagaagg gccgggacc 
agttgtgct aactgcaag acaaccacc acaacactc 
tggagacgc aaccaaaac ggagagcca gtttgcaac 
gcctgtgga ctatactac aaactgcac aacgtgaac 
cgaccatta acgatgaag aaagagggc atccagacg 
aggaatcga aaactatcg tcgaaaagc aaaaagaag 
aaaagtggt ggttcctgt ctatcactc ggcggaatg 
atgggtgat atgatgaag ccgttggac agcagcaag 
ggcggtttc ggcggcggc ggttttggg ggcggcatg 
ggcggcgga cacccgcat ttgaacgcc gcactccat 
ccccatcat gccatgagc cattggtac cagcacagt 
acgcacccg cagggcttc gtctcgggc ccgccgccc 
cctgcgccg cctcccacc gcctcctac caccaccac 
atgagctcg ctgagcgca gcagggctg gggctagca 
tcgaatgga atgactagt tggcggtcg gaatacacg 
tga
    mRNA sequence
    • >TC002315 RA
      tgttgttgg ccgtgttag tatcgggta gttcactta 
tctactgtc agaaattat tgcaacaat gacaccgtt 
gttttgaca aatagcgtc ggttcgaaa cccggctga 
ctgtgattc tgtgagtgt gtgcgagtg catgacagc 
cttaggatt gttacattt aagacataa cgcgtcttg 
gatcaccgt cagctgcgt ccgtcgcaa accaattgc 
tatgccgac catcaccaa cccatcgtt gtgtcccag 
cagcagcaa ctgaagaaa atttccgtt ttctttgcg 
ttgttttcc tccaataaa tcgttcgtt tttcgcgtg 
tgaaagtgg tgcaaaaaa actgttgta acccatgat 
tatggagat gacgaacga gtctgcggc ggtcggccg 
gtggtacga atcgcccag gactggaac ttcggcgag 
tcctggtca agggactct cgaaagtgg taattcgga 
cataaatac tagtgttgc cgaacatat gggcgcgtt 
tttccttga cccatcggg cacgcaaag ggccgcgag 
atactacca tcagagcat gcattcgcc ctacgggac 
ggtcgccag ccacgtttc agcgtctcg gatgtcttc 
gggtcaagt gtgccggtc acacttcca cgcgcccct 
ccacccttg gctatcgga cggcacgaa gcccctcgg 
ccactcggg ttgggtgcc gttcggtgg cggcgatcc 
ggacaaatc gcagtcgcc gagttccgc ccccggcca 
gccgcacaa catcttctc gttcccccc gacgccgcc 
aaaggacag cacgccgga cagcgtggc gccgacggc 
gggcgcaga gtacgtggc ggcggcgat gggcgcctt 
catgcacgg gggcggcgg cggcgacaa cccccagag 
ctgcgccct cgacgtcaa gccgacggc cgtcggagc 
gaacgccaa cagcaaaca gcgcgaagg tagtgacta 
tgaaggggg cactgccgg catgtttaa tggtaactt 
tgaaagctc gtacgggtc tgcgtatgg ccacggtat 
tcacggggc cgcgtactc gccccagaa caagcagca 
tctgggggc tgccggaca gggcgcgca atcgcctaa 
caaaccacg caacaagtc gagaaccag cgccgaggg 
tagggagtg cgtgaattg tggtgcaac gagcacgcc 
actgtggcg acgtgacgg cacaggcca ctacctctg 
caatgcgtg tggattgta ctacaagat gaatggaca 
aaataggcc actcatcaa acccaaaag aagactgag 
tttacaaag cgctgccag aagggccgg gaccagttg 
tgctaactg caagacaac caccacaac actctggag 
acgcaacca aaacggaga gccagtttg caacgcctg 
tggactata ctacaaact gcacaacgt gaaccgacc 
attaacgat gaagaaaga gggcatcca gacgaggaa 
tcgaaaact atcgtcgaa aagcaaaaa gaagaaaag 
tggtggttc ctgtctatc actcggcgg aatgatggg 
tgatatgat gaagccgtt ggacagcag caagggcgg 
tttcggcgg cggcggttt tgggggcgg catgggcgg 
cggacaccc gcatttgaa cgccgcact ccatcccca 
tcatgccat gagccattg gtaccagca cagtacgca 
cccgcaggg cttcgtctc gggcccgcc gccccctgc 
gccgcctcc caccgcctc ctaccacca ccacatgag 
ctcgctgag cgcagcagg gctggggct agcatcgaa 
tggaatgac tagttggcg gtcggaata cacgtgata 
aaatggagt aacctgaaa aacaaggaa tttaatgta 
agaattgta gatattaac gttaaggat ttaattaat 
tgaacgtga tcatgagaa aaactggtc atctgtcat 
tatgtacat tttatttag tttcttttt gtaaattgg 
gtgatttca tgaccagtt tgtatgtat aattaagta 
caaagatgc aaacgtttg taatgtatt gtatataga 
tgttagttt gttttaagg catttttaa tacaagtga 
tgtacatag aagaaggaa aattttaaa gacatgtgc 
aatcttcac gttattata aagtattta tgtgtggac 
gagagatat atgttggtc cgaaggtcg cactcggac 
cgattatac agactgcaa atatgtaaa tatggagaa 
atataacat tttatgagt tgtatgaaa gccgaccaa 
ttttattat aattaacag tttttaaat tattattca 
tgtgcgcaa gcattttta ttgaaaaaa tctagttta 
aaacaccgc gccctgtat aggatcagg acgcgctat 
attcaaaca cattatatt tactgattt cattcacag 
tacaaattc gtattaagt ttttacatt ttttaaaat 
actgatcca attcagggt gcaccaaag ccatgttac 
aatacggcg ttttgaaac gctgtgttg atttttgaa 
tcgattttt cgatttgta attaagtga aatagcata 
attaaattt tcaaaaaaa atgtaaata aaattcgat 
gtatgta

    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