Status
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Gene information
General information
TC030785 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: 1165957..1167766
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
    		TC030785
    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_06071

    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: 30.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    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): less than 30%
    larval musculature pattern irregular - 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): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    cuticle everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030785 RA
      MSCSTVSVL APNGRRQTV KCTANTTIM QIIEEVCRK 
QGFKPEDYD IKHHNKVLD TTISFRFSG LPNNAQLEL 
ATATKARTD SEVILAINS ESGDRVMGN FQPDDTLWS 
VLTKLCPSI KPDDNPVLV YMRNEIYGD NLQKATLRS 
LGLRGGRAM MRLMYRRPD ELKVQANVS APLPTKPVE 
EKPFHRTLK TEAEYSKTT DVKPLQKKT EVDLLKLAR 
EKRKLSSPS KTPETETHS PKTKPKVES DDEKMDVDL 
PENIANYPK EPVTNPSSS QLEDDFVFL GERKAMLFS 
LESARSLPA EDLPDDFFE LTIDDAKKI LGDIRRKRN 
EMDNANLMT SAMRNLEES KKQLRQLRK YKQSVIRVQ 
FPDRSILQG SFKPSETVK DIKDFVTSF LEDPNSDFH 
LYTTPPKNV LSDESKLVE IGCVPGALL HLGANGDGS 
SVCLKAELR DKFTTNSKA SLAASQLRQ KGTRPESPS 
EEMGQDESM DTLTEANAA GPSTQPTSY ERKVIKSTE 
KVPKWFRPS K
    CDS sequence
    • >TC030785 RA
      atgtcgtgt agcaccgtt tcagtcttg gccccaaac 
ggccgtcga cagaccgtc aaatgtacc gcaaacacg 
accataatg cagattatt gaagaagtt tgtcgcaaa 
cagggtttc aagccggag gattacgat attaagcac 
cacaacaaa gtgcttgac acaactatt tcgttccgt 
ttttctggt ttgccaaat aacgctcag ttagaatta 
gcaacagca accaaagca cgcacggac tcggaagta 
attctagcc ataaattct gaaagtggc gaccgagtc 
atgggcaac ttccaacca gatgacact ttatggagt 
gtactaact aaattgtgc cccagtatt aaacctgat 
gacaatcct gttttggtt tatatgcga aatgaaatt 
tacggcgac aatttgcaa aaagccact ttgcgaagc 
ttgggccta agaggtggt agggcgatg atgcggtta 
atgtatcga aggcctgac gaactaaaa gtccaagca 
aatgtctct gctcctctg cctacgaaa ccggtagag 
gagaagccc tttcatcgc actttaaag actgaagct 
gaatattct aaaactacc gatgtgaag cctttacaa 
aagaaaact gaggttgat ttattgaaa ctagcacgg 
gaaaaacga aaattgagc agcccttcc aaaactccg 
gaaacggaa acgcattcg cctaaaact aaacccaaa 
gttgagtct gacgacgaa aaaatggat gttgatttg 
ccagaaaac atcgcaaat tacccaaaa gagccagtt 
accaaccca tcatctagt cagcttgag gacgatttt 
gtttttttg ggcgagcgc aaggcaatg ttattttct 
ctcgaatcg gcgcgttct ttaccagct gaagaccta 
ccagacgat ttttttgag ctcacaatt gatgatgct 
aagaaaatt ctgggcgat attagaaga aagcgaaac 
gaaatggac aacgctaat ctcatgacc tctgcaatg 
cgcaattta gaagaatca aagaagcaa ttacgccaa 
ctgcgtaaa tataaacag tcagtaata cgcgtccag 
ttcccagac aggtccatc cttcaaggg agcttcaag 
cccagcgaa actgttaaa gatattaaa gatttcgtc 
acttctttc ctagaagat ccaaacagt gattttcat 
ctttataca acgccgcct aaaaatgtt ctctcggac 
gaatcaaaa ctagtggaa attggttgc gtgccgggg 
gctttgttg catttagga gcaaatggt gatgggagt 
tctgtgtgc ttgaaggcg gaattgagg gataaattt 
acaacaaac tcaaaagca agtttagcg gcgtcacag 
ttgcggcaa aagggaaca agacccgaa tctccgagt 
gaagaaatg ggccaggat gagtctatg gatacactg 
actgaagca aatgctgct gggccaagt acacaacca 
accagttac gagaggaaa gtaataaaa tcaacggaa 
aaagtccct aagtggttt agaccatca aagtga
    mRNA sequence
    • >TC030785 RA
      gtataaaaa taatcactt attcaaaat gtcgtgtag 
caccgtttc agtcttggc cccaaacgg ccgtcgaca 
gaccgtcaa atgtaccgc aaacacgac cataatgca 
gattattga agaagtttg tcgcaaaca gggtttcaa 
gccggagga ttacgatat taagcacca caacaaagt 
gcttgacac aactatttc gttccgttt ttctggttt 
gccaaataa cgctcagtt agaattagc aacagcaac 
caaagcacg cacggactc ggaagtaat tctagccat 
aaattctga aagtggcga ccgagtcat gggcaactt 
ccaaccaga tgacacttt atggagtgt actaactaa 
attgtgccc cagtattaa acctgatga caatcctgt 
tttggttta tatgcgaaa tgaaattta cggcgacaa 
tttgcaaaa agccacttt gcgaagctt gggcctaag 
aggtggtag ggcgatgat gcggttaat gtatcgaag 
gcctgacga actaaaagt ccaagcaaa tgtctctgc 
tcctctgcc tacgaaacc ggtagagga gaagccctt 
tcatcgcac tttaaagac tgaagctga atattctaa 
aactaccga tgtgaagcc tttacaaaa gaaaactga 
ggttgattt attgaaact agcacggga aaaacgaaa 
attgagcag cccttccaa aactccgga aacggaaac 
gcattcgcc taaaactaa acccaaagt tgagtctga 
cgacgaaaa aatggatgt tgatttgcc agaaaacat 
cgcaaatta cccaaaaga gccagttac caacccatc 
atctagtca gcttgagga cgattttgt ttttttggg 
cgagcgcaa ggcaatgtt attttctct cgaatcggc 
gcgttcttt accagctga agacctacc agacgattt 
ttttgagct cacaattga tgatgctaa gaaaattct 
gggcgatat tagaagaaa gcgaaacga aatggacaa 
cgctaatct catgacctc tgcaatgcg caatttaga 
agaatcaaa gaagcaatt acgccaact gcgtaaata 
taaacagtc agtaatacg cgtccagtt cccagacag 
gtccatcct tcaagggag cttcaagcc cagcgaaac 
tgttaaaga tattaaaga tttcgtcac ttctttcct 
agaagatcc aaacagtga ttttcatct ttatacaac 
gccgcctaa aaatgttct ctcggacga atcaaaact 
agtggaaat tggttgcgt gccgggggc tttgttgca 
tttaggagc aaatggtga tgggagttc tgtgtgctt 
gaaggcgga attgaggga taaatttac aacaaactc 
aaaagcaag tttagcggc gtcacagtt gcggcaaaa 
gggaacaag acccgaatc tccgagtga agaaatggg 
ccaggatga gtctatgga tacactgac tgaagcaaa 
tgctgctgg gccaagtac acaaccaac cagttacga 
gaggaaagt aataaaatc aacggaaaa agtccctaa 
gtggtttag accatcaaa gtgatttat tagtgttaa 
gtttatatg agttggtac ttatattaa ataaaagca 
cttcagcat c

    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