Status
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Gene information
General information
TC002792 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: 10234328..10241470
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
    		TC002792
    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_00446

    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
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%

    - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002792 RA
      MAVKQKVVE CVAQSAEAR LQLILRTLQ DLTAQGLQD 
KKCANIVSL LGTIHVPTD PSDYKQFIG SIKSVQEIL 
TKECMKNDL VYLTLRSLY HEISTSQKP LSPAMSIVL 
TLIQVDYIP TAVDWILQT GYSPENHKK ALMTLCNWL 
PKWTWTENL GRLVLTFMQ GLEAQQQLE IVFEVTEAT 
IEPLFRLLI LPEHRKSVG PIVKYMLFS MLSQSNPVS 
FDKVVPHVG SVVAYLYKE KSDSSLEYF GDIVKVCFL 
LMDHFSDYS NRYVQLKKD LEQHLPAAN CIENGPSNS 
VATVYSASG KVGLNNLGN TCYMNSVLQ ALFMTKPFR 
NEILLYNKD MTSLLSKLQ TLFALLQHS KRASISPHD 
ISNLARPPG FLPGHQHDS SEFLGYLLD VLHEQEKTA 
VCGNGTKAD HVPPSYNTI VQSAFGGRT VSVSRCGEC 
DTKSERVDN FWELQLSFP NTTDNQSVQ TLLNYYLQP 
EKLSGDNQY HCEVCDCLT DGERVTCIE EAPPRLILT 
LKHFRYDQA SQQRTKLLQ SIKLDNHVQ LDTGLYVLY 
AAVVHCGSS VDSGHYYTF ARDGDEWFK FNDCSVMRT 
MAEELCSLK PPETPYILF YSRQDCSDP EALPRTVLS 
QRLQLVINN DHTEFELEK RRRPIKTYN SKQNRNDEP 
PPPGCGGPG FSSNSSNMY VC
    CDS sequence
    • >TC002792 RA
      atggcagtg aagcaaaag gtggtggaa tgcgtggcc 
cagagcgcg gaggcgcgc ctccagctc atcctgcgc 
accctgcag gacctcacg gcccagggg ctccaggac 
aagaagtgc gccaacatc gtcagcctc ctggggacc 
atccacgtg cccacggac cccagcgac tacaagcag 
ttcatcggg agcattaag agcgtccag gagatcctc 
accaaagaa tgcatgaag aacgacttg gtctacctg 
accttgagg tcgctttac cacgaaatc tccacgtct 
cagaagccg ctctcgccg gccatgtcc atagttttg 
acccttatc caagtcgat tatatcccg acggccgtg 
gactggatc ctccaaacg gggtattcc cccgaaaac 
cacaaaaaa gccctcatg acgctgtgt aattggctg 
ccgaaatgg acctggacg gagaacctc ggccggttg 
gtcctcacc ttcatgcag ggcctggag gcccagcaa 
cagctcgag atcgtgttc gaggtcacg gaggccacg 
attgagccc cttttcagg ctgttgatt ttgcccgag 
caccgcaaa agcgtgggc cccattgtc aagtacatg 
ctgttctcc atgttgtcg caaagcaac cccgtgtcc 
ttcgacaag gtcgtcccc cacgtgggg agcgtcgtc 
gcctacttg tacaaagaa aagtccgat tctagtctt 
gaatatttc ggcgacatc gtcaaagtg tgttttctg 
ttaatggac cacttctcc gactattca aatcgctac 
gtccagttg aagaaggac ctggagcag catcttcct 
gcggcgaat tgtatcgag aacgggccg tcgaattcc 
gtggcgacc gtttattca gcgtcgggg aaggtgggg 
ttgaacaac ctggggaac acctgttac atgaacagt 
gtcctccag gcgttgttt atgacgaag ccgttccgc 
aatgagatt cttttgtat aataaggat atgacgtcg 
ttgttgtcc aagttgcag acgctgttt gcgctgttg 
caacactcg aagagggct tccatctcg ccgcatgat 
atttcgaat ttggcgagg ccgcccggg tttttgcca 
gggcatcag catgacagt tcggagttt ttggggtat 
ttgttggat gttttgcac gagcaggag aagacggcc 
gtttgtggg aatggtacc aaagcagac catgtgccc 
ccctcatac aacaccata gtccagtca gccttcggc 
ggtcgcacg gtgtcggtt tcgcgttgc ggcgaatgc 
gacacaaaa agcgaacgc gtcgacaac ttctgggag 
ctgcaactc tccttcccc aacaccacc gacaatcag 
tccgtgcag accctcctc aactactac ctccaaccg 
gagaagctc agcggcgac aaccaatac cactgcgag 
gtgtgcgac tgtctcacc gacggcgag cgcgtcacc 
tgcatcgaa gaggctccc ccacgtctc atcctcacc 
ctgaagcac ttccgctac gaccaggcc tcccagcag 
cgcaccaaa ctcctccag agcatcaaa ctcgacaat 
cacgtgcag ctcgacacc ggcctctac gtgctctac 
gcggcggtg gtccactgc ggctccagt gtggactcg 
gggcactat tacacgttc gcacgagac ggagacgag 
tggttcaag ttcaacgat tgttccgtt atgaggact 
atggcggag gaactttgc agtttgaag ccgccagaa 
acgccgtat attttgttt tatagtcgg caggactgc 
tcggatccc gaggcgctg ccgaggact gtcttgtcg 
cagagatta cagttagtg attaataat gatcacact 
gagttcgag cttgagaag agaaggagg ccgatcaag 
acgtacaac agcaaacaa aatcggaac gatgaaccg 
ccgcctccg gggtgtgga gggcctggg ttttctagt 
aattcatct aatatgtat gtatgctaa
    mRNA sequence
    • >TC002792 RA
      ggccattta attatgatt cccgttttt gccgtttaa 
ttaatttct ttttgtgtt ttatttatt ttgctatca 
tcacccttc gaaaaatgc gtttgtaag tcttaacga 
acgcccaaa gtgtgccta aaccaagtt cctccaccg 
cagctacga ttccaacga ccgtcgaaa aaccctcac 
ctggatgac attcattgc tatcatctc ccagtaaga 
aacatggca gtgaagcaa aaggtggtg gaatgcgtg 
gcccagagc gcggaggcg cgcctccag ctcatcctg 
cgcaccctg caggacctc acggcccag gggctccag 
gacaagaag tgcgccaac atcgtcagc ctcctgggg 
accatccac gtgcccacg gaccccagc gactacaag 
cagttcatc gggagcatt aagagcgtc caggagatc 
ctcaccaaa gaatgcatg aagaacgac ttggtctac 
ctgaccttg aggtcgctt taccacgaa atctccacg 
tctcagaag ccgctctcg ccggccatg tccatagtt 
ttgaccctt atccaagtc gattatatc ccgacggcc 
gtggactgg atcctccaa acggggtat tcccccgaa 
aaccacaaa aaagccctc atgacgctg tgtaattgg 
ctgccgaaa tggacctgg acggagaac ctcggccgg 
ttggtcctc accttcatg cagggcctg gaggcccag 
caacagctc gagatcgtg ttcgaggtc acggaggcc 
acgattgag ccccttttc aggctgttg attttgccc 
gagcaccgc aaaagcgtg ggccccatt gtcaagtac 
atgctgttc tccatgttg tcgcaaagc aaccccgtg 
tccttcgac aaggtcgtc ccccacgtg gggagcgtc 
gtcgcctac ttgtacaaa gaaaagtcc gattctagt 
cttgaatat ttcggcgac atcgtcaaa gtgtgtttt 
ctgttaatg gaccacttc tccgactat tcaaatcgc 
tacgtccag ttgaagaag gacctggag cagcatctt 
cctgcggcg aattgtatc gagaacggg ccgtcgaat 
tccgtggcg accgtttat tcagcgtcg gggaaggtg 
gggttgaac aacctgggg aacacctgt tacatgaac 
agtgtcctc caggcgttg tttatgacg aagccgttc 
cgcaatgag attcttttg tataataag gatatgacg 
tcgttgttg tccaagttg cagacgctg tttgcgctg 
ttgcaacac tcgaagagg gcttccatc tcgccgcat 
gatatttcg aatttggcg aggccgccc gggtttttg 
ccagggcat cagcatgac agttcggag tttttgggg 
tatttgttg gatgttttg cacgagcag gagaagacg 
gccgtttgt gggaatggt accaaagca gaccatgtg 
cccccctca tacaacacc atagtccag tcagccttc 
ggcggtcgc acggtgtcg gtttcgcgt tgcggcgaa 
tgcgacaca aaaagcgaa cgcgtcgac aacttctgg 
gagctgcaa ctctccttc cccaacacc accgacaat 
cagtccgtg cagaccctc ctcaactac tacctccaa 
ccggagaag ctcagcggc gacaaccaa taccactgc 
gaggtgtgc gactgtctc accgacggc gagcgcgtc 
acctgcatc gaagaggct cccccacgt ctcatcctc 
accctgaag cacttccgc tacgaccag gcctcccag 
cagcgcacc aaactcctc cagagcatc aaactcgac 
aatcacgtg cagctcgac accggcctc tacgtgctc 
tacgcggcg gtggtccac tgcggctcc agtgtggac 
tcggggcac tattacacg ttcgcacga gacggagac 
gagtggttc aagttcaac gattgttcc gttatgagg 
actatggcg gaggaactt tgcagtttg aagccgcca 
gaaacgccg tatattttg ttttatagt cggcaggac 
tgctcggat cccgaggcg ctgccgagg actgtcttg 
tcgcagaga ttacagtta gtgattaat aatgatcac 
actgagttc gagcttgag aagagaagg aggccgatc 
aagacgtac aacagcaaa caaaatcgg aacgatgaa 
ccgccgcct ccggggtgt ggagggcct gggttttct 
agtaattca tctaatatg tatgtatgc taaatgttt 
caatatata tcggatttg ggttattac atagttgaa 
ttctttcta atatgttga acaacgaac tgaactcat 
ctgttggca atttggcga tagggtcag gtggggtaa 
gtgttaact aggggtctc aattaatat tcggaatac 
agttgggat gattgattt catagtgtg ccccacccg 
accctggtt attttgccg gtggataac ttttcgccc 
agtgacata tacgattgt aaatattag ttttattca 
cactcacac ataaatagg aattgtttc aaaaatagt 
cacggagta ttgttgttt tattgttgt ttttgtttt 
attttgaaa gtacaacgt actgaattg ttttttttt 
cgaaatcgt gattaattt gctttccat caattgtct 
aggtttgtt tacacttat ttataagtc tgtgaattt 
ataggttta cgttttgtg gatattgta gataacaaa 
tttgtttac tgctggtat tatccatac cgtctgtct 
gtacacaaa ttctacgct tgtatattt ataacaata 
aattgttct tttcata

    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