Status
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Gene information
General information
TC005760 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_007423.3: 8188406..8191439
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
    		TC005760
    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
    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_08913

    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)

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    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: % (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
    • >TC005760 RA
      MSGHAVVVW EYETRPGYW KPYSPAVTQ HLERANAKQ 
LTRVLLSDA DPTLFNFYV NLRTLTQVQ EETDEVVKV 
RRKCYPPSS PAGKGAKWE CVDPENGTD WHPFDMDIQ 
CLIEEAWAN GDQNIDMSK THLGFPYLI NFSNLTQRW 
LTNGHVRSV RRVKQAPYP LVKVKLEEM TSVTGRREI 
AKSAKNVTQ PVQKTIGSS AALNVVETK RSANKKRSH 
KPKNGNETS TTNLARAIL NNLNIFSNK SSSNNFTSN 
SENRTHKES LLDADSSST KSGRRPSLD TVSTYLSQE 
SRESQTTVS TTDLLQCSS EDDNIDHDL LSIVGLDPA 
SAIISKYVR VSQPCEWAP RQPCPTCRQ PLRPTLVVV 
ALPCNHVLH LDCLNYSLT EQQENGAHL HIDCAICGC 
VYGEKHGNQ PPGIMEWGF VDKRLPGFQ NYRTIQIVY 
NIQSGIQGP DHPHPGKEY YAVGFPRVA YLPDCPKGQ 
KVLRLLNIA WQRKLIFTI SRSNTTGCE DVVAWNIPH 
KTEIGPSNS AHSYPDSGY LTRVLRELE ALGVVEEDG 
R
    CDS sequence
    • >TC005760 RA
      atgtcgggc cacgctgtg gtcgtatgg gaatatgag 
actagaccc ggctattgg aagccctac agccctgcg 
gtgacccag catttagag cgagcaaat gccaaacaa 
ctgactcgc gtgctttta tctgacgcc gacccgacc 
ttgttcaac ttttatgtc aatttgcgc actttgaca 
caagtacaa gaggagaca gatgaggtt gtcaaagtg 
cgtcgcaag tgttacccg ccttcgtct ccggccgga 
aaaggggcc aagtgggaa tgtgtcgat ccggaaaat 
ggcaccgat tggcacccc tttgatatg gacattcag 
tgccttatc gaggaggct tgggctaat ggggaccaa 
aacatcgac atgagtaaa actcactta ggttttccg 
tatttgatt aattttagt aacttgaca caaagatgg 
ctgaccaac ggccatgtt cgaagtgtc agacgtgtc 
aaacaagcg ccatatccg ttagttaag gttaagtta 
gaagaaatg acgtctgtg accggtcga cgcgaaatt 
gcaaaaagt gccaaaaat gtcacacaa ccagtacaa 
aaaacaatt ggtagtagt gccgcctta aacgtcgtc 
gaaacgaaa cgaagtgcc aataaaaaa cgatcacac 
aagccaaag aacgggaat gagaccagt actaccaac 
ctagctaga gcaatatta aataattta aatatattt 
agcaataaa tcgagtagt aataatttc acctcgaat 
tctgaaaac cgtactcat aaagaatca cttttggac 
gcggacagc agtagtaca aaatcaggc cgaaggccg 
agtcttgac actgtttcg acctattta agtcaagag 
agccgtgaa agccaaact acagtttcc accactgat 
ttgctgcaa tgtagcagc gaggacgac aatatcgat 
cacgaccta ctctcgata gttggtttg gacccggct 
agtgcaata atctcgaaa tacgtgcgg gtgtcccaa 
ccgtgcgag tgggccccc agacagccc tgccccacg 
tgccggcag cccctgcgc cccacgtta gtcgtggtg 
gcgttgccc tgcaaccac gtgttgcac ctcgactgt 
cttaactac tccctgacc gaacaacag gaaaatggg 
gcacatttg catattgat tgtgcgatt tgtggctgc 
gtctacgga gagaagcac gggaatcag ccccccggc 
atcatggag tggggcttc gtcgataag cgactcccc 
ggcttccag aactaccgc acgattcaa atcgtttat 
aatattcag tcggggatt caagggccg gaccacccc 
cacccaggg aaggagtac tacgctgtg gggttcccc 
cgcgtggcc tatctgccc gattgtccc aaaggacag 
aaagtttta cggttattg aatatcgca tggcagcgg 
aagttgatt tttacgatc agtaggtcc aacacaaca 
ggttgcgag gatgtggtc gcgtggaat ataccgcat 
aaaaccgaa attgggccg agtaatagt gcgcatagt 
taccccgat tcggggtac ttgacgagg gttttgagg 
gagttggag gcgttgggt gttgtggag gaggacggg 
agatga
    mRNA sequence
    • >TC005760 RA
      tctgatgac gtaacaaat ggtaatggt tgatggttt 
gttaacaag ttgtcacaa gtgctcatt ttttgttta 
caaaataaa atcccgtcc aattcgctt tttcctgaa 
ttgagttta tgttgttat cagcgttat ctaatcaca 
gaaaacaaa tgagtgtag ttttggcgc agtttcctg 
tgtttaaaa aacaattga agttggggt catgatgtt 
aattaaatg attgtttta acagacttg gaagcgtcc 
aaaacagat gattttgcc gattttcgg ccaaaatgt 
cgggccacg ctgtggtcg tatgggaat atgagacta 
gacccggct attggaagc cctacagcc ctgcggtga 
cccagcatt tagagcgag caaatgcca aacaactga 
ctcgcgtgc ttttatctg acgccgacc cgaccttgt 
tcaactttt atgtcaatt tgcgcactt tgacacaag 
tacaagagg agacagatg aggttgtca aagtgcgtc 
gcaagtgtt acccgcctt cgtctccgg ccggaaaag 
gggccaagt gggaatgtg tcgatccgg aaaatggca 
ccgattggc acccctttg atatggaca ttcagtgcc 
ttatcgagg aggcttggg ctaatgggg accaaaaca 
tcgacatga gtaaaactc acttaggtt ttccgtatt 
tgattaatt ttagtaact tgacacaaa gatggctga 
ccaacggcc atgttcgaa gtgtcagac gtgtcaaac 
aagcgccat atccgttag ttaaggtta agttagaag 
aaatgacgt ctgtgaccg gtcgacgcg aaattgcaa 
aaagtgcca aaaatgtca cacaaccag tacaaaaaa 
caattggta gtagtgccg ccttaaacg tcgtcgaaa 
cgaaacgaa gtgccaata aaaaacgat cacacaagc 
caaagaacg ggaatgaga ccagtacta ccaacctag 
ctagagcaa tattaaata atttaaata tatttagca 
ataaatcga gtagtaata atttcacct cgaattctg 
aaaaccgta ctcataaag aatcacttt tggacgcgg 
acagcagta gtacaaaat caggccgaa ggccgagtc 
ttgacactg tttcgacct atttaagtc aagagagcc 
gtgaaagcc aaactacag tttccacca ctgatttgc 
tgcaatgta gcagcgagg acgacaata tcgatcacg 
acctactct cgatagttg gtttggacc cggctagtg 
caataatct cgaaatacg tgcgggtgt cccaaccgt 
gcgagtggg cccccagac agccctgcc ccacgtgcc 
ggcagcccc tgcgcccca cgttagtcg tggtggcgt 
tgccctgca accacgtgt tgcacctcg actgtctta 
actactccc tgaccgaac aacaggaaa atggggcac 
atttgcata ttgattgtg cgatttgtg gctgcgtct 
acggagaga agcacggga atcagcccc ccggcatca 
tggagtggg gcttcgtcg ataagcgac tccccggct 
tccagaact accgcacga ttcaaatcg tttataata 
ttcagtcgg ggattcaag ggccggacc acccccacc 
cagggaagg agtactacg ctgtggggt tcccccgcg 
tggcctatc tgcccgatt gtcccaaag gacagaaag 
ttttacggt tattgaata tcgcatggc agcggaagt 
tgattttta cgatcagta ggtccaaca caacaggtt 
gcgaggatg tggtcgcgt ggaatatac cgcataaaa 
ccgaaattg ggccgagta atagtgcgc atagttacc 
ccgattcgg ggtacttga cgagggttt tgagggagt 
tggaggcgt tgggtgttg tggaggagg acgggagat 
gaggtttga ttagttagg ttaagttgg aagtactgt 
taatatacg cttatgcaa tatttcgaa atatttaca 
aaaaatgta cagtatttg atacaatgt gtcctctat 
tgaaaaata tattttata aataaagta atactatta 
ta

    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