Status
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Gene information
General information
TC007098 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_007419.2: 9592264..9596961
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
    		TC007098
    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_01123

    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: 60.0% (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: 2 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 3 (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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007098 RA
      MSVIRKIVR VKTINKKLA AAFTSRRPY SNQSSQFIL 
HSDLEDVEI PKVSLDQYL FEKTHNWPQ RIATECAAT 
GRKYTYEEI QTKSINLNR NLRKKLKLQ KGDVVALLL 
PNSPEFIMA TIGALKAGL VVTTLNPIY TPDEIARQL 
KDSSTKAII TFVDFYELA KASANLTQS QINILTIKT 
QQGQAIPQG ALNFDEFTE PCDYPDVPP PDTNDIAFL 
PYSSGTTGL PKGVQLSHR NILANLCQF NARELSVIQ 
DTTQEHQDV IPAVLPKFH IYGLTATTL HLFYKGCKT 
VAISKFSPE GYLQTLRKY KPDVIFVAP PLVLFLASH 
PSVTSNDLQ SIRSVVSGA APLGALDEE RFITKAQKD 
INILQGYGL TETSPMVAM TRAALKKLP NSSGTIGRP 
VSNTSVKII DPNDPNETP LGANTTGEL VVKGPQVMK 
GYHNRPEET RDAFTKDGW FRTGDMMYY DDNKLLFVS 
DRLKELIKV KGFQVPPAE LEEIIRDFP EVKDAAVIG 
VPHPKDGEV PRAYIVGKN VDVNKLEEF VAQKVAPYK 
RLRGGIEIV ESIPKNATG KILRRALKE EFEKKMK
    CDS sequence
    • >TC007098 RA
      atgtctgtg atacgtaaa atcgtgcga gtgaaaact 
ataaataaa aaactcgct gcagcattc acttctcgc 
cgaccgtat tcaaaccag tcgtcgcag tttatcctg 
cattccgac ctagaagat gtggaaata cctaaggtt 
tcacttgat cagtatctg ttcgaaaaa acgcacaac 
tggccccag cggattgcc acggaatgt gccgccact 
ggccggaaa tatacttac gaagagatt caaaccaaa 
agcatcaat ttgaatcga aatctgcgc aaaaaactc 
aaattgcaa aaaggggat gttgtcgcg cttttgttg 
cccaattcg ccagagttt atcatggcc acgattggg 
gcacttaag gctggtctg gttgtaacc acattgaac 
ccaatttac actcctgat gaaattgca cgccagttg 
aaagactcg tcaacaaaa gccataata acgtttgtc 
gatttttac gaactggcc aaagcttca gccaattta 
actcaatca cagatcaac attttaaca atcaagacc 
cagcaaggc caagccatc ccacaaggt gctttaaat 
tttgacgaa tttaccgaa ccttgtgat tatccggac 
gtgccaccg cccgatacc aatgatatt gcattttta 
ccatactct agtgggaca accggcctt cccaaaggc 
gtccaactc agccacagg aatattttg gcgaatttg 
tgccagttt aacgccagg gaattgtcc gttattcaa 
gataccact caggagcac caagacgtg atcccggcc 
gttttaccc aaattccac atctacggt ctgactgca 
acaaccctg catttattc tacaaaggg tgcaaaacc 
gtggccatt tcgaaattc tctccagaa ggctacttg 
caaactttg cgcaaatac aaacccgac gtgatattc 
gtggcgccc ccacttgtg ctatttctt gcatcgcac 
ccttcggtt acatcaaac gaccttcag tccatccga 
tctgtagtt tctggggcc gctcctttg ggtgccctc 
gatgaggaa cgtttcata acaaaagcc cagaaagac 
atcaacatt ttgcaaggc tatggcctt acggaaacc 
tccccaatg gtcgcaatg acccgtgcc gcccttaaa 
aaactccct aattcaagc ggtaccatt ggccggcct 
gtttccaac acttcggtc aaaatcatc gacccaaat 
gacccaaat gaaacacct ttgggagct aacacaacc 
ggggaactg gtggtcaaa gggccgcaa gtcatgaaa 
gggtaccat aaccgtccc gaggaaact cgggacgct 
tttacgaaa gatgggtgg ttccgtacc ggagatatg 
atgtattac gatgacaac aaactgttg tttgttagc 
gatcgattg aaagagctg attaaagtt aaagggttt 
caagtacca ccagccgag ttggaggag atcattagg 
gatttcccc gaagttaag gacgccgct gtgattggg 
gtgccgcat ccgaaggac ggggaagta ccgagggct 
tacattgtg ggcaaaaac gtggatgtg aataaattg 
gaggagttt gttgcacag aaagtggcg ccttataag 
cgcctgaga ggggggatt gaaattgtt gaaagtatc 
cccaaaaat gccaccggg aaaatttta agacgcgct 
ttgaaagaa gaattcgaa aagaagatg aagtag
    mRNA sequence
    • >TC007098 RA
      aattagcat ttttaatat tgccagtcg actcctgga 
gaaggggca acgcaaacg cgctacgtt agtgcaaaa 
acatacagt ggcagtgtc tacatcggt tgtcatgtc 
tgtgatacg taaaatcgt gcgagtgaa aactataaa 
taaaaaact cgctgcagc attcacttc tcgccgacc 
gtattcaaa ccagtcgtc gcagtttat cctgcattc 
cgacctaga agatgtgga aatacctaa ggtttcact 
tgatcagta tctgttcga aaaaacgca caactggcc 
ccagcggat tgccacgga atgtgccgc cactggccg 
gaaatatac ttacgaaga gattcaaac caaaagcat 
caatttgaa tcgaaatct gcgcaaaaa actcaaatt 
gcaaaaagg ggatgttgt cgcgctttt gttgcccaa 
ttcgccaga gtttatcat ggccacgat tggggcact 
taaggctgg tctggttgt aaccacatt gaacccaat 
ttacactcc tgatgaaat tgcacgcca gttgaaaga 
ctcgtcaac aaaagccat aataacgtt tgtcgattt 
ttacgaact ggccaaagc ttcagccaa tttaactca 
atcacagat caacatttt aacaatcaa gacccagca 
aggccaagc catcccaca aggtgcttt aaattttga 
cgaatttac cgaaccttg tgattatcc ggacgtgcc 
accgcccga taccaatga tattgcatt tttaccata 
ctctagtgg gacaaccgg ccttcccaa aggcgtcca 
actcagcca caggaatat tttggcgaa tttgtgcca 
gtttaacgc cagggaatt gtccgttat tcaagatac 
cactcagga gcaccaaga cgtgatccc ggccgtttt 
acccaaatt ccacatcta cggtctgac tgcaacaac 
cctgcattt attctacaa agggtgcaa aaccgtggc 
catttcgaa attctctcc agaaggcta cttgcaaac 
tttgcgcaa atacaaacc cgacgtgat attcgtggc 
gcccccact tgtgctatt tcttgcatc gcacccttc 
ggttacatc aaacgacct tcagtccat ccgatctgt 
agtttctgg ggccgctcc tttgggtgc cctcgatga 
ggaacgttt cataacaaa agcccagaa agacatcaa 
cattttgca aggctatgg ccttacgga aacctcccc 
aatggtcgc aatgacccg tgccgccct taaaaaact 
ccctaattc aagcggtac cattggccg gcctgtttc 
caacacttc ggtcaaaat catcgaccc aaatgaccc 
aaatgaaac acctttggg agctaacac aaccgggga 
actggtggt caaagggcc gcaagtcat gaaagggta 
ccataaccg tcccgagga aactcggga cgcttttac 
gaaagatgg gtggttccg taccggaga tatgatgta 
ttacgatga caacaaact gttgtttgt tagcgatcg 
attgaaaga gctgattaa agttaaagg gtttcaagt 
accaccagc cgagttgga ggagatcat tagggattt 
ccccgaagt taaggacgc cgctgtgat tggggtgcc 
gcatccgaa ggacgggga agtaccgag ggcttacat 
tgtgggcaa aaacgtgga tgtgaataa attggagga 
gtttgttgc acagaaagt ggcgcctta taagcgcct 
gagaggggg gattgaaat tgttgaaag tatccccaa 
aaatgccac cgggaaaat tttaagacg cgctttgaa 
agaagaatt cgaaaagaa gatgaagta gtgttaagt 
caaaaaatg tttaaggaa ggcttgttt taaaaacag 
acaatagca aactatgtt atttgcgta acaattaaa 
catgtaaca agttctcaa aagtgtaaa aataaaata 
aattaagca cagtcacgc acaataaac atgatccct 
tgac

    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