Status
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Gene information
General information
TC000932 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_007417.3: 8622697..8624020
Sequence information
Transcripts / Proteins (2) 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
    		TC000932
    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_00189

    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

    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: 2 (9 dpi)
    Days post injection

    adult nutritional state potentially bad (cachectic) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    Fertility
    yolk irregular - Number of animals showing the phenotype: 3
    mature egg not present - Number of animals showing the phenotype: 3

    vitellogenic egg chamber late not present - Number of animals showing the phenotype: 4

    egg chamber structure irregular - Number of animals showing the phenotype: 4

    egg chamber sometimes potentiallyfused - Number of animals showing the phenotype: 3

    egg chamber sometimes potentiallydegenerated - Number of animals showing the phenotype: 4

    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: 40.0% (includes death as larva, prepupa, pupa, adult)

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection

    Adult morphology
    adult cuticle colour darker - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection


    Fertility
    egg production: number no/almost no eggs -
    ovariole not present - Number of animals showing the phenotype: 3

    ovary size decreased - Number of animals showing the phenotype: 3
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000932 RA
      MYRGGRSEV WNPCQDLFC EYQSGSHAI LILNTDFNL 
PPGFLLNLW KQAKVRITV DGGTGRWLS WLKSHHLDY 
EGVSPPDLI TGDMDSLSK EILDFFAKN QVTKVVKTP 
DQNHTDFTK ALIELNNTC IAQNLQLES VFVIADTCG 
RFDQIIANI NTLCKAPKI VKKLKVYQV ASNSITWLL 
QDGEHTIHI PQELRKSNE WCALIPIKS PTYATTTGL 
KWNLNQSKL EFGGMVSTS NTYDGVSPT VTVSNDSTL 
IWSMGIETL LV
    • >TC000932 RB
      MCYSLSKMY RGGRSEVWN PCQDLFCEY QSGSHAILI 
LNTDFNLPP GFLLNLWKQ AKVRITVDG GTGRWLSWL 
KSHHLDYEG VSPPDLITG DMDSLSKEI LDFFAKNQV 
TKVVKTPDQ NHTDFTKAL IELNNTCIA QNLQLESVF 
VIADTCGRF DQIIANINT LCKAPKIVK KLKVYQVAS 
NSITWLLQD GEHTIHIPQ ELRKSNEWC ALIPIKSPT 
YATTTGLKW NLNQSKLEF GGMVSTSNT YDGVSPTVT 
VSNDSTLIW SMGIETLLV
    CDS sequence
    • >TC000932 RA
      atgtaccgc gggggaagg agcgaggta tggaaccct 
tgtcaggac ctattttgc gaataccag agcggtagt 
cacgccatt cttatacta aataccgat tttaatctg 
cctccgggc tttttgctc aatttgtgg aagcaagca 
aaggttagg ataacggtg gatgggggc acgggtcgg 
tggctgtcg tggctcaaa tcgcaccat ttggattac 
gagggggtt agtccgcct gatcttatc accggggac 
atggactcg ttatcgaaa gagatttta gatttcttt 
gccaaaaac caagtgact aaagttgtt aaaacgccc 
gatcagaat cacaccgac ttcaccaaa gcgctaatc 
gagctgaac aacacttgc atagcacaa aatctacaa 
cttgagtca gtttttgtg atcgcggac acgtgcggg 
cgatttgat caaatcatt gcgaacatt aatactctc 
tgtaaggcg ccgaagatt gttaaaaaa ttaaaggtt 
tatcaagtc gcgtcaaat tcaatcact tggctgtta 
caagatggg gagcacaca atccatatt ccgcaagaa 
ttgcggaaa agcaacgaa tggtgtgct ttaatcccc 
attaagtca ccaacgtat gccacaaca acgggcctt 
aaatggaac ttaaatcag tcaaaactg gagtttggg 
gggatggta agcacctca aatacgtat gatggggtg 
tcgcccacg gtcaccgtt tccaatgac agtactttg 
atctggtca atgggaata gaaacgctt ctagtctag
    • >TC000932 RB
      atgtgttac agtttatca aagatgtac cgcggggga 
aggagcgag gtatggaac ccttgtcag gacctattt 
tgcgaatac cagagcggt agtcacgcc attcttata 
ctaaatacc gattttaat ctgcctccg ggctttttg 
ctcaatttg tggaagcaa gcaaaggtt aggataacg 
gtggatggg ggcacgggt cggtggctg tcgtggctc 
aaatcgcac catttggat tacgagggg gttagtccg 
cctgatctt atcaccggg gacatggac tcgttatcg 
aaagagatt ttagatttc tttgccaaa aaccaagtg 
actaaagtt gttaaaacg cccgatcag aatcacacc 
gacttcacc aaagcgcta atcgagctg aacaacact 
tgcatagca caaaatcta caacttgag tcagttttt 
gtgatcgcg gacacgtgc gggcgattt gatcaaatc 
attgcgaac attaatact ctctgtaag gcgccgaag 
attgttaaa aaattaaag gtttatcaa gtcgcgtca 
aattcaatc acttggctg ttacaagat ggggagcac 
acaatccat attccgcaa gaattgcgg aaaagcaac 
gaatggtgt gctttaatc cccattaag tcaccaacg 
tatgccaca acaacgggc cttaaatgg aacttaaat 
cagtcaaaa ctggagttt ggggggatg gtaagcacc 
tcaaatacg tatgatggg gtgtcgccc acggtcacc 
gtttccaat gacagtact ttgatctgg tcaatggga 
atagaaacg cttctagtc tag
    mRNA sequence
    • >TC000932 RA
      atttgtgaa aaaaacact tgtgccccc ttttttatg 
ttggccacg tgtgggcct gtcaaatgt cacaatttc 
taggttata tttacagcc ttatccgaa aaattcgca 
aaaaagtcc ttgccatgt gttacagtt tatcaaaga 
tgtaccgcg ggggaagga gcgaggtat ggaaccctt 
gtcaggacc tattttgcg aataccaga gcggtagtc 
acgccattc ttatactaa ataccgatt ttaatctgc 
ctccgggct ttttgctca atttgtgga agcaagcaa 
aggttagga taacggtgg atgggggca cgggtcggt 
ggctgtcgt ggctcaaat cgcaccatt tggattacg 
agggggtta gtccgcctg atcttatca ccggggaca 
tggactcgt tatcgaaag agattttag atttctttg 
ccaaaaacc aagtgacta aagttgtta aaacgcccg 
atcagaatc acaccgact tcaccaaag cgctaatcg 
agctgaaca acacttgca tagcacaaa atctacaac 
ttgagtcag tttttgtga tcgcggaca cgtgcgggc 
gatttgatc aaatcattg cgaacatta atactctct 
gtaaggcgc cgaagattg ttaaaaaat taaaggttt 
atcaagtcg cgtcaaatt caatcactt ggctgttac 
aagatgggg agcacacaa tccatattc cgcaagaat 
tgcggaaaa gcaacgaat ggtgtgctt taatcccca 
ttaagtcac caacgtatg ccacaacaa cgggcctta 
aatggaact taaatcagt caaaactgg agtttgggg 
ggatggtaa gcacctcaa atacgtatg atggggtgt 
cgcccacgg tcaccgttt ccaatgaca gtactttga 
tctggtcaa tgggaatag aaacgcttc tagtctagc 
gagtgataa atacatttt ttaatttag ttgggggcc 
ttattcctt aaatttact tagaaacaa ttataatat 
ttcctatgt aattttgga gtagatagc tagtatctg 
tcaatgaag cggatatta atgctattg aaaccatga 
ctgtgtcat ttttttgaa aatatttat ttttgtata 
ataaaagtt aatagaaat t
    • >TC000932 RB
      atttgtgaa aaaaacact tgtgccccc ttttttatg 
ttggccacg tgtgggcct gtcaaatgt cacaatttc 
taggttata tttacagcc ttatccgaa aaattcgca 
aaaaagtcc ttgccatgt gttacagtt tatcaaaga 
tgtaccgcg ggggaagga gcgaggtat ggaaccctt 
gtcaggacc tattttgcg aataccaga gcggtagtc 
acgccattc ttatactaa ataccgatt ttaatctgc 
ctccgggct ttttgctca atttgtgga agcaagcaa 
aggttagga taacggtgg atgggggca cgggtcggt 
ggctgtcgt ggctcaaat cgcaccatt tggattacg 
agggggtta gtccgcctg atcttatca ccggggaca 
tggactcgt tatcgaaag agattttag atttctttg 
ccaaaaacc aagtgacta aagttgtta aaacgcccg 
atcagaatc acaccgact tcaccaaag cgctaatcg 
agctgaaca acacttgca tagcacaaa atctacaac 
ttgagtcag tttttgtga tcgcggaca cgtgcgggc 
gatttgatc aaatcattg cgaacatta atactctct 
gtaaggcgc cgaagattg ttaaaaaat taaaggttt 
atcaagtcg cgtcaaatt caatcactt ggctgttac 
aagatgggg agcacacaa tccatattc cgcaagaat 
tgcggaaaa gcaacgaat ggtgtgctt taatcccca 
ttaagtcac caacgtatg ccacaacaa cgggcctta 
aatggaact taaatcagt caaaactgg agtttgggg 
ggatggtaa gcacctcaa atacgtatg atggggtgt 
cgcccacgg tcaccgttt ccaatgaca gtactttga 
tctggtcaa tgggaatag aaacgcttc tagtctagc 
gagtgataa atacatttt ttaatttag ttgggggcc 
ttattcctt aaatttact tagaaacaa ttataatat 
ttcctatgt aattttgga gtagatagc tagtatctg 
tcaatgaag cggatatta atgctattg aaaccatga 
ctgtgtcat ttttttgaa aatatttat ttttgtata 
ataaaagtt aatagaaat t

    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