Status
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Gene information
General information
TC030578 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_007425.3: 6645026..6669700
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
    		TC030578
    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
    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_02592

    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

    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030578 RA
      MLCFVQGFE DRDDGKERK LQVVKNRFL KKSRSSGNF 
GSAGARSAP GTPQGTLGT SPEPVSQPC SPGCTSPSI 
QRSPSHSLF TKCDKASLK HLSTSTPAM TAQAQLTEP 
PSPKTAKEN KVPTTSKAR QKKFNRHFP AVDDDEKVL 
NHYSCALIG DILLQGHLY ITKNYFAFY SNVFGYVTK 
LLIPMLSVE KITKEKTAR IIPNAVGIA TSEDKHVFG 
SLMSRDSTY RYMVKVWEV AQNASLLVV EPEIVEPVV 
SDSDSTETR EGESGRESP LPTPRFAQM VLKEHKDTA 
ATGPKVENQ QRSMELLYA LKQAISKFA SLPRQSLIL 
FATTLLLIL LFLSAAVLL YRISKIQSK YSFNLHETM 
LAAGSEDVY SNLLQYQTH LHSKSAGAV HNFLDTNLD 
QIAKVRQSL EALSTLLIP NNRQKEASS RDSSS
    CDS sequence
    • >TC030578 RA
      atgttgtgt ttcgtgcaa ggattcgag gatagagac 
gatggcaaa gagcgcaag ctgcaagtg gtcaagaat 
cgcttcttg aaaaaatca cggtcgtct ggcaatttt 
gggagcgcg ggggcccgg tcggctccc ggaacccca 
caagggaca ctcggtact tccccggaa cctgtctcg 
cagccatgc agtccgggc tgcacatcg ccctcgatc 
cagcgaagt ccaagtcac tcgctcttc actaaatgc 
gataaagcg tctttgaaa cacttatcg acgtcgacg 
ccggccatg acggcccaa gcgcagctc accgaaccc 
cccagcccc aaaacggca aaggagaac aaagtgcct 
acgacgtcg aaagcgcgc cagaaaaaa ttcaacaga 
cactttccg gctgttgac gatgacgag aaagtccta 
aatcattat tcctgtgcc cttatcggt gatattctg 
ctacaaggc cacttgtac atcaccaaa aactacttt 
gcgttctat tccaacgtc ttcggatac gtgaccaag 
cttctcatt ccaatgctg tccgtggag aaaataacg 
aaagaaaaa accgcaagg ataatcccc aacgctgtt 
ggaatcgcc acaagcgag gacaagcac gttttcggc 
agcctaatg tcacgtgac agcacctac cgttacatg 
gtcaaagtc tgggaggtg gcccagaac gcctctctc 
ctcgtcgtc gagccggaa attgtggaa cctgtagtg 
tcggacagc gacagcacg gagacgcgc gaaggcgaa 
agcggccga gagtcgcct cttcccact ccccgattt 
gctcagatg gtcctcaag gagcacaag gacaccgct 
gccacaggg cctaaggtc gaaaaccaa caacgctca 
atggaactg ctctacgct ctcaagcag gccatctcg 
aaatttgcc agcctaccg cgacagagc ctaatactg 
ttcgccacc acgttgctc ctcattctc ctcttctta 
tcggctgct gtgctactt tatcgaatt agtaaaata 
caaagcaaa tattcgttc aatttgcat gagacgatg 
ctcgctgcg ggcagcgaa gacgtctac agcaatctg 
ctgcaatat cagacgcac ttgcattcg aagtcggcg 
ggggctgtg cacaacttc ttagacacg aatttagac 
caaattgcg aaggtgaga cagtccctg gaagcgcta 
tcgaccctg ttgatcccc aacaacagg cagaaagaa 
gcgagttcc agagacagc agcagttag
    mRNA sequence
    • >TC030578 RA
      ctgccctcc acaacaacc gcttgacga cgtgtataa 
taccgttcg ttcgactcg caacctcac caagcgtga 
acacattca gtcaatgaa gagaccgcg aaaggggca 
acgttttcg cctgccatg tgcccaaaa agtcgctaa 
agtcgcctc tgaatcact taaaaaaaa tcgccacca 
tgtcgccaa atcctgagt gatgttgtg tttcgtgca 
aggattcga ggatagaga cgatggcaa agagcgcaa 
gctgcaagt ggtcaagaa tcgcttctt gaaaaaatc 
acggtcgtc tggcaattt tgggagcgc gggggcccg 
gtcggctcc cggaacccc acaagggac actcggtac 
ttccccgga acctgtctc gcagccatg cagtccggg 
ctgcacatc gccctcgat ccagcgaag tccaagtca 
ctcgctctt cactaaatg cgataaagc gtctttgaa 
acacttatc gacgtcgac gccggccat gacggccca 
agcgcagct caccgaacc ccccagccc caaaacggc 
aaaggagaa caaagtgcc tacgacgtc gaaagcgcg 
ccagaaaaa attcaacag acactttcc ggctgttga 
cgatgacga gaaagtcct aaatcatta ttcctgtgc 
ccttatcgg tgatattct gctacaagg ccacttgta 
catcaccaa aaactactt tgcgttcta ttccaacgt 
cttcggata cgtgaccaa gcttctcat tccaatgct 
gtccgtgga gaaaataac gaaagaaaa aaccgcaag 
gataatccc caacgctgt tggaatcgc cacaagcga 
ggacaagca cgttttcgg cagcctaat gtcacgtga 
cagcaccta ccgttacat ggtcaaagt ctgggaggt 
ggcccagaa cgcctctct cctcgtcgt cgagccgga 
aattgtgga acctgtagt gtcggacag cgacagcac 
ggagacgcg cgaaggcga aagcggccg agagtcgcc 
tcttcccac tccccgatt tgctcagat ggtcctcaa 
ggagcacaa ggacaccgc tgccacagg gcctaaggt 
cgaaaacca acaacgctc aatggaact gctctacgc 
tctcaagca ggccatctc gaaatttgc cagcctacc 
gcgacagag cctaatact gttcgccac cacgttgct 
cctcattct cctcttctt atcggctgc tgtgctact 
ttatcgaat tagtaaaat acaaagcaa atattcgtt 
caatttgca tgagacgat gctcgctgc gggcagcga 
agacgtcta cagcaatct gctgcaata tcagacgca 
cttgcattc gaagtcggc gggggctgt gcacaactt 
cttagacac gaatttaga ccaaattgc gaaggtgag 
acagtccct ggaagcgct atcgaccct gttgatccc 
caacaacag gcagaaaga agcgagttc cagagacag 
cagcagtta gccacgtta ataacagtg ctaggaatg 
tgatcagta ttcaatctt ttaaattta gatttagca 
atatttcac ttaaatatt gttgccacc atcccagta 
tcgacacta ggccgcgct gtttcatca tatttgcca 
aatctatta ttgccataa gggtaatgg aactactcc 
tatgtatag tccgcacgt ttatactat aagctcaat 
ttgtcacga ggggttttt ggtgtaatg gaccgatga 
ttgtaaact gggacttgt ttttaatag ttaattaat 
ttatcgcca tctagtaca aacttattt tataattcc 
actttagtt caacgcgcc caacactgt ctagcaata 
atatcaaag gatttttta aaaaaaaag attgggaac 
taatgctgt gaattggta ctgagcgat tttcgtaat 
tttagaaac ttcgtaatc ctgattagg cagaaactt 
gttgaaacg ttcatcctt tatttcaat gtacagttt 
aataggaac gatttacac tgtttttaa ttttacatg 
tacctacga tgtttatat gttaggtgt taatttatt 
gcggttaga gttgtgttt tgtcaattg ttttgtaac 
atgttaaca tagaagaaa cctgtgata tcttatttg 
ttttgcttt tatcaataa atagttaca atttaa

    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