Status
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Gene information
General information
TC003373 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: 2959252..2961630
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
    		TC003373
    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
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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_07947

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: number 2nd lateral oviduct: - Number of animals showing the phenotype: 4

    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
    • >TC003373 RA
      MSANNVNAQ PAPTTQATA TIKSRPNIM PSSYLYTSS 
SALLNRNAE NKPTPPPTL PKYTSSFNA GSGLNRDRD 
KDSIGGSYR LSSLDRLAM RQKFMDQQS PTNGTITTQ 
TNGSEATSI QTKREMFFT STTDTKDSN RVKPPEPPA 
KTPPEQPAK EDSKESTPE IVKERPKLK ELDGYVGFA 
NLPNQVYRK AVKKGFEFT LMVVGESGL GKSTLINSM 
FLTEIYNAT DYPGPTQRL KKTVAVETT RVMLKENGV 
NLLLTMVDT PGFGDAVDN SNCWAPIIE YIESKYEDY 
LNSEARVTR KQIPDQRVH CCLYFIQPS GHGLKSLDI 
EFMKRLCDK VNIIPIIAK ADTLTSDEC ALFKKQILN 
EIAQNKIKI YEFPDTSED DEEHKLNKS LKERVPFAV 
VGSNTVIEV DGKKVRGRK YPWGIAEVE NLEHCDFIA 
LRNMIIRTH LQDLKDVTN NVHYENYRC RKLAGLGVD 
GKPSRISNK NPLAQMDEE KREHDLKMK KMEAEMEQV 
FEMKVREKK QKLKDSEAE LTRRHEATK KQLEQQAKE 
LEEKRRQFE MEKEQWEKE NQITVEELR RRSLEGSRE 
AVDGKKEKK KKGLF
    CDS sequence
    • >TC003373 RA
      atgagtgcc aacaatgtg aatgctcaa cctgcccct 
accacccaa gccaccgcc accatcaag tccagaccc 
aacatcatg cccagcagc tacttgtac acttctagc 
agtgccctt ctcaaccgc aacgctgag aacaaaccc 
acgccgccg cccaccctc cccaagtac acctccagc 
ttcaatgcc gggagcggt ctcaaccgg gacagggac 
aaggacagc atcgggggt tcctaccgc ctctcaagc 
ctggaccga ctagccatg aggcagaaa ttcatggac 
cagcaaagc cccacaaat ggcaccatc accacccaa 
acaaatggc agtgaagcc acttcaatc caaaccaaa 
cgagagatg ttcttcact tcaaccacc gacacgaag 
gactccaac agggttaaa ccgccagaa cccccggcc 
aagacaccc ccagaacaa ccggccaaa gaagacagc 
aaggaatcc acccctgag attgtcaag gaacggcct 
aaactcaaa gaactggac ggttacgtc ggctttgcc 
aatctaccg aaccaggtg taccgaaag gccgtgaag 
aagggcttc gagttcacc ctcatggtg gtgggggag 
tcaggcttg ggcaaatcc accctaatc aactcgatg 
tttctaaca gaaatctac aacgccacc gactaccct 
gggcccacc cagcgcctc aagaagaca gtcgccgtg 
gagaccacc cgagtcatg ctcaaggaa aacggcgta 
aacctcctc ctcaccatg gtggacact cccggcttc 
ggcgacgcc gtcgacaac agcaactgc tgggccccc 
atcatcgaa tacatcgag tccaaatac gaggactac 
ctgaactct gaggcccgc gtcacccgg aaacaaatc 
cccgaccag cgggtccac tgctgcttg tacttcatc 
caaccgtcg ggacacggc ttaaaatcc ctcgatata 
gagtttatg aagcgtttg tgtgataaa gtgaacatt 
attcccata atagcaaag gccgacacg ctcacatcc 
gacgaatgc gccctcttc aagaagcaa atcctgaac 
gagatcgcc cagaacaag atcaaaatc tacgagttc 
cccgacacg tccgaagac gacgaggag cacaagctg 
aacaagtcg ctgaaggag cgcgtgccg ttcgctgtg 
gtgggctcg aacacggtc atagaagtg gacgggaag 
aaggtgcgc ggccggaag tacccctgg gggatcgcc 
gaagtcgag aacttggaa cactgtgat tttatcgca 
cttcgcaac atgatcata cgcacacat ctccaggac 
ttgaaggac gtcaccaat aatgtgcac tacgagaat 
taccgttgc cgcaagttg gccggttta ggggtggat 
gggaagccg tcccggatt tcgaacaaa aatccactg 
gcgcagatg gacgaggag aagcgcgag cacgatctc 
aagatgaag aagatggag gcggagatg gagcaagtg 
tttgaaatg aaggttcgt gagaagaag caaaagctg 
aaggatagt gaggcggaa ctgacgagg agacacgag 
gcgacgaag aagcagctg gagcagcaa gccaaggag 
ttggaggag aagaggagg cagttcgag atggagaag 
gagcagtgg gagaaggag aaccaaatc acggtggag 
gagctgcgt cggaggtcg ctcgaaggg agcagggag 
gccgtcgat ggcaagaag gagaagaag aaaaaggga 
cttttctaa
    mRNA sequence
    • >TC003373 RA
      taatagtga taaaacggt ggaaagttg tacgttatc 
ggtggagcg gaagagacg ccacgggcg tggctgacc 
aagcaaaca ttactcata cccggcatc caactgtca 
atttgacat cacaaatcg cgaagtgaa taacaatgg 
cagtgtagg tccactagg tgttttacc acaatgagt 
gccaacaat gtgaatgct caacctgcc cctaccacc 
caagccacc gccaccatc aagtccaga cccaacatc 
atgcccagc agctacttg tacacttct agcagtgcc 
cttctcaac cgcaacgct gagaacaaa cccacgccg 
ccgcccacc ctccccaag tacacctcc agcttcaat 
gccgggagc ggtctcaac cgggacagg gacaaggac 
agcatcggg ggttcctac cgcctctca agcctggac 
cgactagcc atgaggcag aaattcatg gaccagcaa 
agccccaca aatggcacc atcaccacc caaacaaat 
ggcagtgaa gccacttca atccaaacc aaacgagag 
atgttcttc acttcaacc accgacacg aaggactcc 
aacagggtt aaaccgcca gaacccccg gccaagaca 
cccccagaa caaccggcc aaagaagac agcaaggaa 
tccacccct gagattgtc aaggaacgg cctaaactc 
aaagaactg gacggttac gtcggcttt gccaatcta 
ccgaaccag gtgtaccga aaggccgtg aagaagggc 
ttcgagttc accctcatg gtggtgggg gagtcaggc 
ttgggcaaa tccacccta atcaactcg atgtttcta 
acagaaatc tacaacgcc accgactac cctgggccc 
acccagcgc ctcaagaag acagtcgcc gtggagacc 
acccgagtc atgctcaag gaaaacggc gtaaacctc 
ctcctcacc atggtggac actcccggc ttcggcgac 
gccgtcgac aacagcaac tgctgggcc cccatcatc 
gaatacatc gagtccaaa tacgaggac tacctgaac 
tctgaggcc cgcgtcacc cggaaacaa atccccgac 
cagcgggtc cactgctgc ttgtacttc atccaaccg 
tcgggacac ggcttaaaa tccctcgat atagagttt 
atgaagcgt ttgtgtgat aaagtgaac attattccc 
ataatagca aaggccgac acgctcaca tccgacgaa 
tgcgccctc ttcaagaag caaatcctg aacgagatc 
gcccagaac aagatcaaa atctacgag ttccccgac 
acgtccgaa gacgacgag gagcacaag ctgaacaag 
tcgctgaag gagcgcgtg ccgttcgct gtggtgggc 
tcgaacacg gtcatagaa gtggacggg aagaaggtg 
cgcggccgg aagtacccc tgggggatc gccgaagtc 
gagaacttg gaacactgt gattttatc gcacttcgc 
aacatgatc atacgcaca catctccag gacttgaag 
gacgtcacc aataatgtg cactacgag aattaccgt 
tgccgcaag ttggccggt ttaggggtg gatgggaag 
ccgtcccgg atttcgaac aaaaatcca ctggcgcag 
atggacgag gagaagcgc gagcacgat ctcaagatg 
aagaagatg gaggcggag atggagcaa gtgtttgaa 
atgaaggtt cgtgagaag aagcaaaag ctgaaggat 
agtgaggcg gaactgacg aggagacac gaggcgacg 
aagaagcag ctggagcag caagccaag gagttggag 
gagaagagg aggcagttc gagatggag aaggagcag 
tgggagaag gagaaccaa atcacggtg gaggagctg 
cgtcggagg tcgctcgaa gggagcagg gaggccgtc 
gatggcaag aaggagaag aagaaaaag ggacttttc 
taacactga atgtatagt tttggtgtg gtaccttct 
taacttcat ggtaatttc tttaattaa gtgacttta 
acggcagag atagtttcg tctagtgag actcccgca 
atagattga gaaattatg ttttcaaat acacaactg 
ccattaaaa tagcgtaat tgtctacgt gccgattta 
ctatttttt accatgatt acttgtgag ctgtttaga 
tcgtacatt aagagataa tgaatggga attatttaa 
cttatataa ataaaatca attatttga acagaagtg 
tcttttcgt gacatcttg cttggaagc aatgtgcca 
ttatttttt tttattttt atttacttg tattaactg 
taaaaataa attcttttc tgacag

    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