Status
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Gene information
General information
TC002995 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: 5131925..5142969
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
    		TC002995
    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
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00496

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 5 number 2nd lateral oviduct: >5 - Number of animals showing the phenotype: 4
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 100.0% (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 - Number of animals showing the phenotype: 5 (19 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 3 (22 dpi)
    Days post injection

    Adult morphology
    motility decreased -

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002995 RA
      MFLRFAVLC LVLCLQNVA SEWKKPTVL IAVLARNKA 
HTLPYFLTT LENLDYPKN RISLWIRSD HNSDKTIEI 
LRKWINAVK DEYRMISTE FVEENEGYP DESGPAHWT 
PERFNHVID LRESSLNFA RKIWADYYW TIDCDVFLT 
NPKTLDILI SKGYTVVAP MLKSDGLYS NFWYGMTDD 
YYYQRTEDY KPVVNRENI GCFNVPMVH SCVLVDLRR 
QVSDFLTYD PDKVPNFDG PIDDIITFA IGANRSGIS 
LNLCNDERF GFVMLPLEQ DANLAIDFE QLTNIKLEV 
LTEEKPLNV SKLLEAYTW LPEKDTLGF DKIFMINLL 
RRPERRQRM RFCFDELGL QVTIVDAVD GRALNASIL 
QQISPLPEY ADPYHKRPM TLGEIGCFL SHYNIWKDI 
VRNGYETTL VLEDDIRFE SFFRTKVLN VMDEVKRVS 
GWDLVYLGR KRLQEDDEP WVEGSSLLV EAGYSYWTL 
GYVLSLNGA KKLLNADPL SRLVPVDEY LPILFDKHP 
QTSWKGYFP KRNLVALSA APLLVYPTH YTGEQGYIS 
DTEDSVIIK ENGPRARDD L
    CDS sequence
    • >TC002995 RA
      atgtttttg cgcttcgcg gtgctgtgt cttgttttg 
tgtttacaa aacgtggct agtgaatgg aaaaaaccc 
acggttctc atcgctgtt ttggcccga aacaaagct 
catacgtta ccttatttt ctcacaact ttggaaaat 
ctcgattat cccaaaaat cggatttct ttgtggata 
agaagcgac cacaatagt gataaaacg attgaaatt 
ttgcggaaa tggatcaat gcggtcaag gatgaatat 
cgtatgatt agcaccgaa tttgtggaa gagaatgaa 
gggtatcct gacgaaagt ggacctgct cattggacc 
ccggaacgg tttaaccat gttatagac ttgagagag 
tcatctttg aatttcgcc agaaaaatc tgggctgat 
tattattgg acaatcgat tgcgacgtt tttctaaca 
aaccctaaa acacttgac atactaata tcaaagggc 
tacactgta gtggccccc atgctgaaa tccgacgga 
ttgtattca aatttctgg tacggaatg accgacgat 
tactattac caaagaaca gaagactat aagcccgta 
gtaaaccgc gaaaatatt ggttgtttt aacgtgcca 
atggtccac tcttgcgtc ctcgttgat ttgaggaga 
caagtctca gattttcta acttatgat ccggataaa 
gtgccgaat tttgatggc cctattgat gatattatc 
acgtttgct atcggagca aacaggagc ggaatctca 
ttaaattta tgcaacgat gaacggttt ggatttgtt 
atgttgccc ttggaacaa gacgctaac ttagcgatt 
gattttgaa caactgacg aatattaag ttggaggtt 
ctgactgaa gagaaacct ctaaacgtt agcaaattg 
ttggaggcc tatacgtgg cttcctgaa aaagatact 
ttagggttt gataaaatt tttatgatc aatttgctg 
cgacgaccg gaaaggagg caacggatg aggttctgc 
tttgacgag ctgggactt caagtcaca atcgtcgac 
gcggtggat ggaagggcg ctgaatgcg agtattttg 
cagcagata tctcctttg cccgaatat gcggaccct 
tatcacaaa agaccgatg acactcgga gaaattggg 
tgcttttta agtcattat aacatctgg aaggatatt 
gttcggaac ggatatgag accactctt gttttagag 
gatgatatt agatttgaa tcctttttc cgaactaaa 
gtgttgaat gtgatggac gaggtaaag cgtgtttcc 
ggctgggat ttggtgtat ttaggccgt aaaaggttg 
caggaagac gatgaaccg tgggtggag gggtcaagt 
ttgttagtc gaggcgggt tattcctac tggacttta 
ggatatgtc cttagcctg aacggagcc aaaaaactt 
ttaaacgct gatcctctc tccagactt gtgccagtt 
gacgagtat ttaccgata ttatttgat aagcatcca 
cagacgagt tggaagggt tatttcccc aagagaaat 
ttggttgca ttatcggcc gctccctta ctggtctat 
cccacgcac tatacggga gaacagggc tatattagc 
gacacggag gactctgtt attatcaag gaaaatgga 
ccacgagct cgcgacgat ctttga
    mRNA sequence
    • >TC002995 RA
      gctaaaatt tgaaaagtg tggttcgaa atttattta 
taaaatagt tttacaata cgtttccaa tgattttgc 
gctaaagtt taaaaatgt ttttgcgct tcgcggtgc 
tgtgtcttg ttttgtgtt tacaaaacg tggctagtg 
aatggaaaa aacccacgg ttctcatcg ctgttttgg 
cccgaaaca aagctcata cgttacctt attttctca 
caactttgg aaaatctcg attatccca aaaatcgga 
tttctttgt ggataagaa gcgaccaca atagtgata 
aaacgattg aaattttgc ggaaatgga tcaatgcgg 
tcaaggatg aatatcgta tgattagca ccgaatttg 
tggaagaga atgaagggt atcctgacg aaagtggac 
ctgctcatt ggaccccgg aacggttta accatgtta 
tagacttga gagagtcat ctttgaatt tcgccagaa 
aaatctggg ctgattatt attggacaa tcgattgcg 
acgtttttc taacaaacc ctaaaacac ttgacatac 
taatatcaa agggctaca ctgtagtgg cccccatgc 
tgaaatccg acggattgt attcaaatt tctggtacg 
gaatgaccg acgattact attaccaaa gaacagaag 
actataagc ccgtagtaa accgcgaaa atattggtt 
gttttaacg tgccaatgg tccactctt gcgtcctcg 
ttgatttga ggagacaag tctcagatt ttctaactt 
atgatccgg ataaagtgc cgaattttg atggcccta 
ttgatgata ttatcacgt ttgctatcg gagcaaaca 
ggagcggaa tctcattaa atttatgca acgatgaac 
ggtttggat ttgttatgt tgcccttgg aacaagacg 
ctaacttag cgattgatt ttgaacaac tgacgaata 
ttaagttgg aggttctga ctgaagaga aacctctaa 
acgttagca aattgttgg aggcctata cgtggcttc 
ctgaaaaag atactttag ggtttgata aaattttta 
tgatcaatt tgctgcgac gaccggaaa ggaggcaac 
ggatgaggt tctgctttg acgagctgg gacttcaag 
tcacaatcg tcgacgcgg tggatggaa gggcgctga 
atgcgagta ttttgcagc agatatctc ctttgcccg 
aatatgcgg acccttatc acaaaagac cgatgacac 
tcggagaaa ttgggtgct ttttaagtc attataaca 
tctggaagg atattgttc ggaacggat atgagacca 
ctcttgttt tagaggatg atattagat ttgaatcct 
ttttccgaa ctaaagtgt tgaatgtga tggacgagg 
taaagcgtg tttccggct gggatttgg tgtatttag 
gccgtaaaa ggttgcagg aagacgatg aaccgtggg 
tggaggggt caagtttgt tagtcgagg cgggttatt 
cctactgga ctttaggat atgtcctta gcctgaacg 
gagccaaaa aacttttaa acgctgatc ctctctcca 
gacttgtgc cagttgacg agtatttac cgatattat 
ttgataagc atccacaga cgagttgga agggttatt 
tccccaaga gaaatttgg ttgcattat cggccgctc 
ccttactgg tctatccca cgcactata cgggagaac 
agggctata ttagcgaca cggaggact ctgttatta 
tcaaggaaa atggaccac gagctcgcg acgatcttt 
gatgcagat ttatttacg tgaatgttc ctactaact 
tgacctcac atttttcat taggtggcg acagtgcaa 
tttcttatt tatgtgcca tttgttaat gccatttat 
tattacgat aagctgcaa gttgcttat aaaagtgcc 
ttataacaa tattttatg tcaaagaat tttataaca 
caataaaat aataatacc aag

    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