Status
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Gene information
General information
TC030744 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_007421.3: 8965772..8974129
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
    		TC030744
    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
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    Email
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    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_10232

    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 (with pupal and adult features) - Number of animals showing the phenotype: 5 (3 dpi)
    Days post injection

    Fertility
    mature egg not present - Number of animals showing the phenotype: 4
    tropharium structure irregular - Number of animals showing the phenotype: 4
    egg chamber number decreased - Number of animals showing the phenotype: 4

    egg chamber potentially degenerated - 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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030744 RA
      MSEVRRKTP EITFDSEPP NDLDSSSGC ELSFELSSD 
YVRSPSPRR SASSNPTYS PPYKRVRAL RLFDSPLTP 
KTIIQKSAT TPAPRCRLF TEKPRSVTN TKQKPVANV 
NPFTPNGFY QNKKRLRST SSLQIPKFD LNDSDVSDI 
ENEPPAKRV PLQENNISR YHQEFLELE LIGSGQFGS 
VYKCVNRLD GCIYAIKKS TKPVAGSVF EKTALNEVY 
AHAVLGKHQ HVVRYYSAW AEDNHMVIQ NEYCNGGSL 
ADRLQEGPL SPVELRQML MHVAEGLRY IHSEGLVHL 
DIKPGNIFI SREKKIQFT NYDSADDGF EDLEESHYE 
EELTYKIGD LGHVTSLSN PQVEEGDCR YLPNEILHE 
DYSHLTKAD IFALGLTVI ESAGAGPLP KNGPDWHKL 
REGEVPKLS QNLSRDMIN LIGLMIHPD PTMRPGASQ 
VLHHPALCP VGKKTRAQL HRELNAEKL KNEILAKQL 
KEAAICIKS IAPDSKQLK SVTRISNRL IGKKVNRSS 
STTTF
    CDS sequence
    • >TC030744 RA
      atgtctgaa gtgcgccgg aagactccc gagatcacg 
tttgactcg gagcccccc aacgatctg gactcgtcg 
tcaggttgt gagctgtct ttcgaactt tcgagtgac 
tatgtacgc agcccctca ccgaggcgt tcagcttcg 
tccaacccg acatacagc cccccgtac aagcgggtg 
cgagcgctg cgactgttc gacagccct ctcaccccc 
aagactatc atacagaag tcggccacg acgccggcc 
cccaggtgt cggctcttc acggagaag ccgcgcagt 
gtcaccaac accaagcag aagccggtg gccaacgtc 
aaccccttc acaccaaac ggcttttat cagaataag 
aagcgcttg aggtcgacg agttcgtta caaatcccc 
aagtttgat ttaaacgat tcagacgtg tcagacatc 
gagaacgag cccccagct aaacgagtg ccgctccaa 
gagaacaat atctcacgt tatcaccag gagttcctc 
gagctcgaa ctgatcggt tcgggtcag ttcggttcg 
gtttacaag tgtgtaaac cgtttggat ggttgcatt 
tatgcgata aaaaaatca acgaaaccc gtagctgga 
agtgtcttt gagaaaacg gctttgaac gaggtctac 
gcccacgct gtcttgggc aaacaccag cacgtggtg 
cgctactac tcggcctgg gccgaagac aaccacatg 
gtgatccag aacgagtac tgcaatggg ggctcgttg 
gccgaccga ctacaagag ggccccctc agcccggtg 
gagctgcgc cagatgctg atgcacgtg gctgagggg 
ctccgctac atccattcc gaaggcctc gtccacctt 
gacatcaaa cccgggaac attttcata tcaagagag 
aagaaaatc caattcacg aattacgac tccgccgat 
gatggtttc gaagacttg gaggagagc cactacgag 
gaggagctg acgtacaaa atcggcgat ttgggacac 
gtgaccagc ttgagtaac ccccaggtg gaagaaggc 
gactgtcgt tatctcccg aatgaaata cttcatgaa 
gattacagt catttgacc aaagctgat attttcgcg 
ctgggtttg acggtgatt gagagtgcg ggggcgggg 
ccactgccg aaaaacggc cccgattgg cataaacta 
cgcgaaggg gaggtgcca aagctgtct cagaatttg 
agtagggat atgatcaat ttgattggt ttgatgata 
catcccgac ccgactatg aggcccggg gcttcccag 
gttttgcac cacccggcc ctttgcccc gttgggaag 
aaaacaagg gctcagtta cacagggaa ttgaatgct 
gaaaaattg aagaatgag attttggcg aagcagttg 
aaggaagca gcgatttgt atcaagtcg atagccccc 
gatagcaaa cagttgaag agcgtgacg aggattagt 
aataggttg atcgggaag aaggtgaat aggagcagc 
agcactact acgttctag
    mRNA sequence
    • >TC030744 RA
      cgattttcg taaccgttt ccgtgtcga aaatagagc 
gtgtgtttg tttttttgc gaattttgg gcgtttttt 
gtgcgtgag aaatgtctg aagtgcgcc ggaagactc 
ccgagatca cgtttgact cggagcccc ccaacgatc 
tggactcgt cgtcaggtt gtgagctgt ctttcgaac 
tttcgagtg actatgtac gcagcccct caccgaggc 
gttcagctt cgtccaacc cgacataca gccccccgt 
acaagcggg tgcgagcgc tgcgactgt tcgacagcc 
ctctcaccc ccaagacta tcatacaga agtcggcca 
cgacgccgg cccccaggt gtcggctct tcacggaga 
agccgcgca gtgtcacca acaccaagc agaagccgg 
tggccaacg tcaacccct tcacaccaa acggctttt 
atcagaata agaagcgct tgaggtcga cgagttcgt 
tacaaatcc ccaagtttg atttaaacg attcagacg 
tgtcagaca tcgagaacg agcccccag ctaaacgag 
tgccgctcc aagagaaca atatctcac gttatcacc 
aggagttcc tcgagctcg aactgatcg gttcgggtc 
agttcggtt cggtttaca agtgtgtaa accgtttgg 
atggttgca tttatgcga taaaaaaat caacgaaac 
ccgtagctg gaagtgtct ttgagaaaa cggctttga 
acgaggtct acgcccacg ctgtcttgg gcaaacacc 
agcacgtgg tgcgctact actcggcct gggccgaag 
acaaccaca tggtgatcc agaacgagt actgcaatg 
ggggctcgt tggccgacc gactacaag agggccccc 
tcagcccgg tggagctgc gccagatgc tgatgcacg 
tggctgagg ggctccgct acatccatt ccgaaggcc 
tcgtccacc ttgacatca aacccggga acattttca 
tatcaagag agaagaaaa tccaattca cgaattacg 
actccgccg atgatggtt tcgaagact tggaggaga 
gccactacg aggaggagc tgacgtaca aaatcggcg 
atttgggac acgtgacca gcttgagta acccccagg 
tggaagaag gcgactgtc gttatctcc cgaatgaaa 
tacttcatg aagattaca gtcatttga ccaaagctg 
atattttcg cgctgggtt tgacggtga ttgagagtg 
cgggggcgg ggccactgc cgaaaaacg gccccgatt 
ggcataaac tacgcgaag gggaggtgc caaagctgt 
ctcagaatt tgagtaggg atatgatca atttgattg 
gtttgatga tacatcccg acccgacta tgaggcccg 
gggcttccc aggttttgc accacccgg ccctttgcc 
ccgttggga agaaaacaa gggctcagt tacacaggg 
aattgaatg ctgaaaaat tgaagaatg agattttgg 
cgaagcagt tgaaggaag cagcgattt gtatcaagt 
cgatagccc ccgatagca aacagttga agagcgtga 
cgaggatta gtaataggt tgatcggga agaaggtga 
ataggagca gcagcacta ctacgttct agggattta 
tttattacc aacactagt gatctagtt tcgtttcgc 
acgaaatgg aatttaggc gttagacgt gtagactga 
tattgatag caaggctgt aaccgtttt aattaaatt 
gttaatttt tcgagcttg tttgtcgtt tgtacacta 
atcaaaatt cctccaggt actaggttt catactttt 
ttattttac atattttat acttatagc ttagattta 
ttaaaggta tttgttata tttatgtga taattattt 
ttaaatgat agagtaggt atagatgaa cagtgtaac 
tctacattc ctttaactt gtgcctttg tcgcatcaa 
tttattgca gcgatttgt tagtgcatt ctcttgatt 
tgtaagaaa ttataccaa ataaacgat tggtcgctt 
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