Status
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Gene information
General information
TC030683 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: 11891076..11893629
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
    		TC030683
    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
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    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06048

    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: 40.0% (includes death as pupa, adult)

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

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head partially decreased - 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): 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
    • >TC030683 RA
      MDEVLFRGS QKIENLQVQ LSLAAIHSK EILHQYSQQ 
SKTALLQAW NSSYTQQAK ASLRELWQY FVDLGERVQ 
TNLLEHLDP EKLYYNLVK VLWKKWTKR DFCFLCAGF 
ICGSIVGVV FAISIKKKE SVIRYMQAV QCTNYLGIE 
SATVVENAR APDVCREND VIISVKAAS IHVIDAQIC 
SGYGRTLRK ILQKIYNKH SKKGLPVTL GRDCAGIIS 
DIGSNVKRL EVGDEVWLT VPFWDVGTL SQSVIVPEF 
RIGRKPKNI GYEGACSLP YAGTVALNA LKEVDISQE 
NAQDKKVLI IGGCTPVGC VLIQILAHW SANVTTTCT 
KRAVPVAKA LGADDIIIF PPEDNDKSN EGVAAFLKE 
LELRDKFDC IIMTRNCDL KIKELDFFS QKGIVSTLP 
EERQSDSCG FCGETLLGT YIYLKSIIE KILGLSLND 
YDEGHMCYV TLDELSEMV ENGFLQTVV DKVFHPQDI 
EIALNHIQS DDSIGSTVI TFR
    CDS sequence
    • >TC030683 RA
      atggacgaa gtcctgttc cgcggctcc caaaaaatc 
gaaaattta caggttcaa ctcagctta gctgcaatc 
catagcaaa gaaatcctc caccagtat tcccagcaa 
agcaagact gcactttta caagcatgg aacagttct 
tatacacaa caagccaaa gcaagttta cgcgaatta 
tggcaatat ttcgtcgat ttaggcgaa agggtgcaa 
acaaacctt ttggagcac cttgacccc gagaaactc 
tactacaat ttggttaaa gtgctttgg aaaaaatgg 
acaaaaagg gacttttgc tttctgtgt gcaggtttt 
atctgtgga agcattgta ggcgtagtt tttgcaatc 
tctattaag aagaaagag tcagtaata cggtacatg 
caagcagtc cagtgtaca aattattta ggtattgag 
tcagctact gttgttgaa aacgctaga gcccccgat 
gtttgtagg gaaaacgat gttataatt agcgtaaaa 
gcggcctca attcacgta attgatgca caaatctgt 
agcggttac ggccggacg ttgcgtaaa atcctccaa 
aaaatatac aataagcat tcgaagaag ggattaccg 
gtgactttg gggcgcgat tgtgcagga attatctca 
gacataggc tcaaacgta aaaagacta gaagtaggg 
gatgaagtg tggctaaca gtcccgttc tgggacgta 
ggaactctg tcccaaagt gtgattgtg ccagaattc 
cggataggt cgtaagcca aaaaacata ggatatgag 
ggtgcttgt agtcttcca tatgcaggg actgtggca 
ttaaatgca cttaaagaa gttgacatc agccaagaa 
aatgcacaa gacaagaag gttttgatt atagggggg 
tgcaccccc gtaggctgc gttttgatc cagatttta 
gcccactgg agtgccaat gtcaccacc acttgtacc 
aaaagagca gtgccagtg gccaaagcc ctgggggct 
gacgatatt atcattttt ccaccggaa gataatgac 
aaatctaac gaaggtgtg gctgcattt ttgaaagaa 
ctcgaattg cgcgataaa tttgactgt atcatcatg 
acaagaaat tgcgatttg aaaataaag gagctcgat 
tttttttcg caaaagggg atcgtgtcc acgttgccg 
gaagaacgc caatctgat tcttgtggt ttctgtggg 
gagacttta ctggggact tacatttat ctaaagtca 
ataattgag aaaattttg gggctttcc ctgaacgat 
tacgatgaa ggccatatg tgttatgta accttggat 
gaattgtct gaaatggtc gaaaatggg tttcttcag 
acagttgtt gataaagtc tttcatccc caagatatc 
gaaattgcc ttgaatcat attcagtca gatgattcc 
ataggcagc actgtcatc acttttagg taa
    mRNA sequence
    • >TC030683 RA
      aattattac agccgtaaa atttaataa ttttgccat 
tgataacaa atgtggcaa cagtgtcgg gctcaaaac 
gtcaaaatt ttatcaaaa tttccggtg aaaaaatta 
ttttctcga taaaaattc taatacaca tacaaattc 
attcgtact attccaagc ttcccttag acatactta 
aactgattt tttatcttt tacaaaatt agcatgaca 
attacataa catttaata ggttttgtt tatttttct 
tccacaaat catgcttta aaatggacg aagtcctgt 
tccgcggct cccaaaaaa tcgaaaatt tacaggttc 
aactcagct tagctgcaa tccatagca aagaaatcc 
tccaccagt attcccagc aaagcaaga ctgcacttt 
tacaagcat ggaacagtt cttatacac aacaagcca 
aagcaagtt tacgcgaat tatggcaat atttcgtcg 
atttaggcg aaagggtgc aaacaaacc ttttggagc 
accttgacc ccgagaaac tctactaca atttggtta 
aagtgcttt ggaaaaaat ggacaaaaa gggactttt 
gctttctgt gtgcaggtt ttatctgtg gaagcattg 
taggcgtag tttttgcaa tctctatta agaagaaag 
agtcagtaa tacggtaca tgcaagcag tccagtgta 
caaattatt taggtattg agtcagcta ctgttgttg 
aaaacgcta gagcccccg atgtttgta gggaaaacg 
atgttataa ttagcgtaa aagcggcct caattcacg 
taattgatg cacaaatct gtagcggtt acggccgga 
cgttgcgta aaatcctcc aaaaaatat acaataagc 
attcgaaga agggattac cggtgactt tggggcgcg 
attgtgcag gaattatct cagacatag gctcaaacg 
taaaaagac tagaagtag gggatgaag tgtggctaa 
cagtcccgt tctgggacg taggaactc tgtcccaaa 
gtgtgattg tgccagaat tccggatag gtcgtaagc 
caaaaaaca taggatatg agggtgctt gtagtcttc 
catatgcag ggactgtgg cattaaatg cacttaaag 
aagttgaca tcagccaag aaaatgcac aagacaaga 
aggttttga ttatagggg ggtgcaccc ccgtaggct 
gcgttttga tccagattt tagcccact ggagtgcca 
atgtcacca ccacttgta ccaaaagag cagtgccag 
tggccaaag ccctggggg ctgacgata ttatcattt 
ttccaccgg aagataatg acaaatcta acgaaggtg 
tggctgcat ttttgaaag aactcgaat tgcgcgata 
aatttgact gtatcatca tgacaagaa attgcgatt 
tgaaaataa aggagctcg atttttttt cgcaaaagg 
ggatcgtgt ccacgttgc cggaagaac gccaatctg 
attcttgtg gtttctgtg gggagactt tactgggga 
cttacattt atctaaagt caataattg agaaaattt 
tggggcttt ccctgaacg attacgatg aaggccata 
tgtgttatg taaccttgg atgaattgt ctgaaatgg 
tcgaaaatg ggtttcttc agacagttg ttgataaag 
tctttcatc cccaagata tcgaaattg ccttgaatc 
atattcagt cagatgatt ccataggca gcactgtca 
tcactttta ggtaaaatt tattttaga caaactgga 
gattgttta gtacaaagt aattgtaat aaagtggta 
ataactgtc gtaaaacaa attttagta agtatggca 
tacattatg aattaacat ttcctacaa aactgtgcc 
tttttgtac tgccagtaa taatttatt taagactta 
ttgtttata aatggatgt atgacataa taaatcagt 
tgttagcaa

    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