Status
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Gene information
General information
TC010062 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_007422.5: 9596880..9599715
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
    		TC010062
    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_04754

    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: 50.0% (includes death as pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (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

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 4 number 2nd lateral oviduct: 3 - Number of animals showing the phenotype: 4
    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: 70.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (16 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010062 RA
      MDATEYRIR GKELVDYIA DYLEDIRER RVFPDKKPG 
FLRDLIPDS APIEGETWP RIFADIENV IMPGVTHWQ 
SPHMHAYFP ALTSYPSML GEMLSNAIN CVGFTWASS 
PAATELEMI VMNWLGKMI GLPENFLHR KNGSGGGVI 
QTTASEATL ISLLAGRWQ AIKKYKELY PDAENGEIN 
SKLVAYCSD QAHSSVEKA ALIGLVHIR YIECDENLS 
MRGPELLQT IKKDRELGF IPFWVCATL GTTGACSFD 
NLDEIGDVC VEEFLWLHV DAAYAGSAF ICPEYRVWL 
KGVEKVDSI SFNPSKWLM VHFDCTAMW VKNSLALHE 
AFNVDPVYL QHEYSGLAI DYMHWQIPL SKRFRAIKL 
WFVIRNYGI TGLQKHIRE GVRLAQKFE ALVQSDARF 
EIPAKRHLG LVVFRLVGD NIITETLWK KINSRGNIH 
CVPAIIKGK YIIRFTVTS PRTTNEDIV KDWQEIKTV 
ATEVLNEWT PGARPRVPL ADTKNRNEN FGTSLLLSN 
SPMSPKIVN GSFAAIYDR DDVIAEYSK TIKLRQDAQ 
NSPAMRRRI KGILMSGKQ FSLDSRLDL FHGIEAGTP 
SPSEGLPPL EDYNESEDN GSTFSGEFE PNEPNDDFL 
QVPNAPKQK RSKSVDHQV PISMQSEGY TTCKKCGHQ 
IITIQK
    CDS sequence
    • >TC010062 RA
      atggacgcc actgaatac cggatccgg ggcaaagaa 
ctcgtcgac tacattgcg gattatctg gaagacatc 
cgggagcgc agagtgttt ccagacaag aaacccgga 
ttcctccgg gacttgatt cccgacagc gctcccatc 
gagggcgaa acctggccc cggattttc gcagacata 
gaaaatgtc atcatgcca ggggtcacc cactggcag 
agtccccac atgcatgcg tacttcccg gctttgacg 
agctacccc tccatgctg ggggagatg ctctccaat 
gccatcaac tgtgtggga tttacttgg gcgtccagt 
ccggctgct accgaactg gagatgatc gtgatgaac 
tggctgggg aagatgatc ggtcttccg gagaatttt 
ttgcaccgg aaaaatggt agtggtggt ggggtcatc 
cagaccact gctagcgag gccaccttg atcagtcta 
ctggcaggt cgctggcag gcgattaag aagtacaag 
gagctttat ccggacgcc gaaaatggc gaaattaac 
agtaaatta gttgcttat tgttcggac caagctcac 
tccagcgta gaaaaagca gccttgatc ggtttagtc 
cacatccgg tatatcgaa tgcgacgag aacttatcg 
atgcgtgga cccgaactg ttacagact atcaagaaa 
gaccgcgag cttggattc ataccgttc tgggtttgt 
gctactttg ggcacgaca ggtgcttgc tcctttgat 
aatttagat gaaattgga gacgtttgt gtggaggag 
tttttgtgg ttgcatgtc gatgcagcg tacgctggg 
agcgccttt atatgccca gagtacaga gtttggcta 
aaaggtgtt gaaaaggtt gactcaatt tcctttaat 
ccatcgaaa tggctgatg gtacatttt gactgcacg 
gcaatgtgg gttaaaaat agtttagca cttcatgaa 
gccttcaac gtggacccg gtgtacctc caacacgaa 
tattcaggt ctagcgatt gactatatg cattggcag 
ataccgtta agtaagaga ttcagggcc attaaattg 
tggtttgta attcgcaat tacggcatt accggactt 
caaaaacac atacgcgag ggcgtgcgt ctcgctcaa 
aaattcgag gctctcgtc cagtcggac gcccgtttt 
gagatccca gccaagcgc catctaggg cttgttgtt 
tttcgccta gtgggcgac aacattatc actgaaact 
ctttggaaa aagatcaac tctcgagga aacatacac 
tgcgttccg gccataatc aagggcaaa tacataatc 
aggtttaca gtaacgtct ccgcgtacc acaaacgag 
gacattgtg aaagactgg caggaaatc aaaactgtg 
gcaactgaa gtcctcaac gagtggact cctggtgcc 
cggccaaga gtccccctt gcggatacc aagaacagg 
aacgagaat ttcgggaca agtctcttg ctttccaat 
tcgccaatg tctcccaaa attgtcaat ggaagtttt 
gcagccatt tacgaccgc gatgacgtg attgccgaa 
tactccaaa acgattaaa ttgagacaa gatgcacag 
aacagtcct gcaatgagg agaagaatc aaggggatt 
ttaatgtcg ggaaaacag ttttcttta gattcgaga 
ctagacttg ttccacggc atcgaagcc gggactcca 
agtcccagt gaaggctta ccgcctttg gaagattat 
aacgaaagt gaagacaac gggagcact ttttctgga 
gaattcgag ccgaatgaa cccaacgat gattttctc 
caagtgcca aatgcaccc aaacaaaaa cggtccaag 
tcggtggat catcaagtc ccaatttca atgcaaagt 
gagggttat acaacttgt aaaaaatgt gggcaccaa 
ataatcaca atccagaaa taa
    mRNA sequence
    • >TC010062 RA
      ttcacgcac ccagatgga cgccactga ataccggat 
ccggggcaa agaactcgt cgactacat tgcggatta 
tctggaaga catccggga gcgcagagt gtttccaga 
caagaaacc cggattcct ccgggactt gattcccga 
cagcgctcc catcgaggg cgaaacctg gccccggat 
tttcgcaga catagaaaa tgtcatcat gccaggggt 
cacccactg gcagagtcc ccacatgca tgcgtactt 
cccggcttt gacgagcta cccctccat gctggggga 
gatgctctc caatgccat caactgtgt gggatttac 
ttgggcgtc cagtccggc tgctaccga actggagat 
gatcgtgat gaactggct ggggaagat gatcggtct 
tccggagaa ttttttgca ccggaaaaa tggtagtgg 
tggtggggt catccagac cactgctag cgaggccac 
cttgatcag tctactggc aggtcgctg gcaggcgat 
taagaagta caaggagct ttatccgga cgccgaaaa 
tggcgaaat taacagtaa attagttgc ttattgttc 
ggaccaagc tcactccag cgtagaaaa agcagcctt 
gatcggttt agtccacat ccggtatat cgaatgcga 
cgagaactt atcgatgcg tggacccga actgttaca 
gactatcaa gaaagaccg cgagcttgg attcatacc 
gttctgggt ttgtgctac tttgggcac gacaggtgc 
ttgctcctt tgataattt agatgaaat tggagacgt 
ttgtgtgga ggagttttt gtggttgca tgtcgatgc 
agcgtacgc tgggagcgc ctttatatg cccagagta 
cagagtttg gctaaaagg tgttgaaaa ggttgactc 
aatttcctt taatccatc gaaatggct gatggtaca 
ttttgactg cacggcaat gtgggttaa aaatagttt 
agcacttca tgaagcctt caacgtgga cccggtgta 
cctccaaca cgaatattc aggtctagc gattgacta 
tatgcattg gcagatacc gttaagtaa gagattcag 
ggccattaa attgtggtt tgtaattcg caattacgg 
cattaccgg acttcaaaa acacatacg cgagggcgt 
gcgtctcgc tcaaaaatt cgaggctct cgtccagtc 
ggacgcccg ttttgagat cccagccaa gcgccatct 
agggcttgt tgtttttcg cctagtggg cgacaacat 
tatcactga aactctttg gaaaaagat caactctcg 
aggaaacat acactgcgt tccggccat aatcaaggg 
caaatacat aatcaggtt tacagtaac gtctccgcg 
taccacaaa cgaggacat tgtgaaaga ctggcagga 
aatcaaaac tgtggcaac tgaagtcct caacgagtg 
gactcctgg tgcccggcc aagagtccc ccttgcgga 
taccaagaa caggaacga gaatttcgg gacaagtct 
cttgctttc caattcgcc aatgtctcc caaaattgt 
caatggaag ttttgcagc catttacga ccgcgatga 
cgtgattgc cgaatactc caaaacgat taaattgag 
acaagatgc acagaacag tcctgcaat gaggagaag 
aatcaaggg gattttaat gtcgggaaa acagttttc 
tttagattc gagactaga cttgttcca cggcatcga 
agccgggac tccaagtcc cagtgaagg cttaccgcc 
tttggaaga ttataacga aagtgaaga caacgggag 
cactttttc tggagaatt cgagccgaa tgaacccaa 
cgatgattt tctccaagt gccaaatgc acccaaaca 
aaaacggtc caagtcggt ggatcatca agtcccaat 
ttcaatgca aagtgaggg ttatacaac ttgtaaaaa 
atgtgggca ccaaataat cacaatcca gaaataagc 
tctttaaat gttgtagct tttctctct tgtgttgta 
acttgtaac ttttaaatt aaaggtaga cttactgct 
gtgctatgc aataattct cctaatgca acatagctg 
ttttagatc taagactgt atgcacgat ataaataaa 
ttgatgttg atgtt

    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