Status
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Gene information
General information
TC034050
Former TC numbers

If one gene is splitted or genes are merged, the original TC numbers are listed. One listed former TC number indicates the previous gene has be splitted, serveral former TC number represents a merged gene.

TC005796,TC005797 		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: 7463610..7494193
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
    		TC034050
    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 *
    {{ blurReferenceResult }}
    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_04015

    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: 0.0% (includes death as pupa, adult)

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature irregular - 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%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     head irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    thorax segment number decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    legs podomer shortened - Penetrance (percentage of animals/eggs on slide): less than 30%
    legs pretarsus rounded - Penetrance (percentage of animals/eggs on slide): more than 80%
    legs pretarsus shortened - Penetrance (percentage of animals/eggs on slide): more than 80%
    legs pretarsus split - Penetrance (percentage of animals/eggs on slide): less than 30%
    legs duplicated - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    abdomen irregular - 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): more than 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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 7 (41 dpi)
    Days post injection

    Pupal morphology
    antenna orientation irregular - Number of animals showing the phenotype: 5

    ommatidia potentially structure fused - Number of animals showing the phenotype: 4

    longitudinal dorsal thoracic muscles structure not present - Number of animals showing the phenotype: 5

    oblique dorsal thoracic muscles size shortened - Number of animals showing the phenotype: 5

    Adult morphology
    eyes structure irregular - Number of animals showing the phenotype: 2


    antenna orientation bent - Number of animals showing the phenotype: 5

    ommatidia potentially fused - Number of animals showing the phenotype: 2

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC034050 RA
      MHLPVSLSS CTVSEEAWP KSSGMCEPS SGYVSNNQD 
IWWTEHLIH EIQTEHPGE LVRTGSPYF LCSALPTHW 
RSNKTLPVA FKVVALGDI GDGTIVTVR AGNDENCCA 
ELRNSTAVM KNQVAKFND LRFVGRSGR GKSFSITIT 
VSTTPPQVA TYTKAIKVT VDGPREPRS KTSEYLPWI 
LLHREPWII QPGQHTAYR AIGLGQRPF LDGSFSTHL 
RDLEAYKKQ RGGPSSQSS DGSQSSYKQ DSQDGSLHP 
NPPPCPPAT WPDYSYTPY SPQTGYYDH QDSATSLHL 
PTVLPEPGH NEFINTSLT SPPPMLNSA KSELDPMRY 
SDNSTYYPN NWTPNSYPN NYNYYNTPN NNQQYPSTM 
VLYPPLYST QNQIHFHLH GSSEKIDQY LSTESLSLT 
PTRAIELAQ TVTTEVAQS HETLEDTER THDPASVWR 
PY
    CDS sequence
    • >TC034050 RA
      atgcatctc ccagtctcc ctctcgtct tgcaccgtt 
tcggaggaa gcgtggccg aagagcagc ggcatgtgc 
gagccatcg tcgggctac gtctccaac aaccaggac 
atctggtgg acggaacac ctcatccac gagatccag 
acggagcat cccggcgaa ttggtccgc actggaagt 
ccctatttt ctctgttcg gcccttccg actcattgg 
aggtcaaac aaaacgctt ccggtggcg ttcaaagtg 
gtagctttg ggggatatt ggcgatgga acaatagtg 
actgtgaga gcgggcaat gacgagaac tgttgtgca 
gaattgagg aattcaaca gcggtgatg aagaaccaa 
gtggccaag tttaacgat ttgaggttc gtcgggagg 
agtggacgg ggtaaatcg ttttcgatt acgattacg 
gtgtcgacg acgccgcca caggtcgcg acctacacc 
aaagccatc aaagtgacc gtggatggg cccagggaa 
cccagatcg aagaccagt gagtattta ccttggatt 
ttgttacac cgcgaaccg tggataatt caacccggc 
cagcacacc gcctaccgg gccatcggc ctggggcag 
aggcccttc ctggacggc tccttctcg acgcacctg 
cgggacctg gaggcgtac aaaaaacag cgcggtgga 
ccgtcgtcg caaagcagc gacggctcg caaagctcc 
tacaagcag gactcgcaa gacgggtcg ctgcacccc 
aacccgccc ccctgtccc cctgccacg tggcccgac 
tactcgtac accccctac agcccccag acgggctac 
tacgaccac caggactcc gccacctcg cttcatctt 
cccaccgtt ctccccgag ccaggccat aacgaattc 
atcaacact tcgctcacc tcccccccg cctatgctc 
aacagtgcc aagtccgag ctggacccc atgaggtac 
tccgataac agtacctac taccccaac aattggacc 
ccgaactcg taccccaac aactacaac tactacaac 
acgcccaac aacaaccag cagtacccc agtactatg 
gtcctctac ccccctttg tactccacc cagaaccag 
attcacttc cacctgcat ggtagtagc gaaaagatc 
gaccagtac ttaagtacc gaaagtctg agtttgacc 
ccaactagg gctatagaa ctagcacag actgtgact 
acagaagtg gcacaatcg catgaaacg ctcgaggat 
acggaaagg acgcatgac cccgccagt gtctggagg 
ccgtactga
    mRNA sequence
    • >TC034050 RA
      tcagtcgcg atttgacaa tcgacggtt gtggtgttg 
ttcgcggat gcgacgttc acgtgtttc gatgatttt 
ttcgaaaaa acaagtgca ggttttgag tgtggtggt 
tttttgagt gagatacag ggattagcg ccccctgcc 
ccatgcatc tcccagtct ccctctcgt cttgcaccg 
tttcggagg aagcgtggc cgaagagca gcggcatgt 
gcgagccat cgtcgggct acgtctcca acaaccagg 
acatctggt ggacggaac acctcatcc acgagatcc 
agacggagc atcccggcg aattggtcc gcactggaa 
gtccctatt ttctctgtt cggcccttc cgactcatt 
ggaggtcaa acaaaacgc ttccggtgg cgttcaaag 
tggtagctt tgggggata ttggcgatg gaacaatag 
tgactgtga gagcgggca atgacgaga actgttgtg 
cagaattga ggaattcaa cagcggtga tgaagaacc 
aagtggcca agtttaacg atttgaggt tcgtcggga 
ggagtggac ggggtaaat cgttttcga ttacgatta 
cggtgtcga cgacgccgc cacaggtcg cgacctaca 
ccaaagcca tcaaagtga ccgtggatg ggcccaggg 
aacccagat cgaagacca gtgagtatt taccttgga 
ttttgttac accgcgaac cgtggataa ttcaacccg 
gccagcaca ccgcctacc gggccatcg gcctggggc 
agaggccct tcctggacg gctccttct cgacgcacc 
tgcgggacc tggaggcgt acaaaaaac agcgcggtg 
gaccgtcgt cgcaaagca gcgacggct cgcaaagct 
cctacaagc aggactcgc aagacgggt cgctgcacc 
ccaacccgc ccccctgtc cccctgcca cgtggcccg 
actactcgt acaccccct acagccccc agacgggct 
actacgacc accaggact ccgccacct cgcttcatc 
ttcccaccg ttctccccg agccaggcc ataacgaat 
tcatcaaca cttcgctca cctcccccc cgcctatgc 
tcaacagtg ccaagtccg agctggacc ccatgaggt 
actccgata acagtacct actacccca acaattgga 
ccccgaact cgtacccca acaactaca actactaca 
acacgccca acaacaacc agcagtacc ccagtacta 
tggtcctct acccccctt tgtactcca cccagaacc 
agattcact tccacctgc atggtagta gcgaaaaga 
tcgaccagt acttaagta ccgaaagtc tgagtttga 
ccccaacta gggctatag aactagcac agactgtga 
ctacagaag tggcacaat cgcatgaaa cgctcgagg 
atacggaaa ggacgcatg accccgcca gtgtctgga 
ggccgtact gatagccct ccaagggct gttcttatt 
tattgtaaa atttgtatt ataaaaagt attattaca 
ggaaactgt aactattat ttttctact cgctttatt 
agcttaccg actcgtttc ttttgtgtc ttattttag 
atttatacg atggttgtg tctacgaat gttgcaata 
acatctcca tgtgacaat ttttctgtc aattatatc 
gtgtcaatg tcaatacat atcaaaatc tttgtgatt 
ttaaaaact acgggcgct cgagcccat tttcaaagt 
atttatatt gtactaata gtagaacaa gttaataaa 
cgattaatg agtgt

    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