Status
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Gene information
General information
TC008270 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: 7624745..7629089
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
    		TC008270
    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_09924

    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: 20.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    Adult morphology
    abdominal odoriferous glands potentially content darker - Number of animals showing the phenotype: 3 (13 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): less than 30%
    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     antenna antennal flagellum not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    antenna position irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    labrum potentially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    labrum posterior constricted - Penetrance (percentage of animals/eggs on slide): less than 30%

    labrum potentially size decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    labrum shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    vertex posterior labrum bristle potentially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - 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: % (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
    • >TC008270 RA
      MMDILRCCE TTENEITAF VDGTLLQDR VLKNMLQSE 
YRCVPSNVF INQREITES MIEIVGGWM MEVCEEQTC 
QDDVFLLSM NYLYRFLTT TNIKKNQLQ LLGAACMLI 
ASKLREPKP LSAEMLVFY TDHSITTNM LTSWELLVL 
SKLKWDIIA IVPVDFLPH LLVRLDFER LGIKAEMVK 
KHAKILITL CAKECRFTN CYPSLLACA SVVSALCGL 
GWVNKYHQS QEALLKTLA DIIDVQETD FMQELVQNI 
DQMIKQNFE NVKDNKVCD EVTRSEQCT PPPGKIRDY 
KTATTPTDV HDVCF
    CDS sequence
    • >TC008270 RA
      atgatggat atactgcgt tgttgcgaa acaaccgaa 
aatgaaatt acggccttc gttgacggc actttgttg 
caagaccgg gtcttaaaa aacatgtta cagtctgaa 
taccggtgt gtgccctcc aacgtgttt attaatcaa 
cgggagatc accgagtct atgatcgag atcgtcggg 
ggttggatg atggaggta tgcgaagaa cagacgtgt 
caagacgac gtcttcctc ctctccatg aactacctg 
tacaggttc ctcaccacc accaacatc aagaagaac 
cagctgcag ctgctgggg gcggcgtgc atgctcatc 
gcctccaag ttaagggag cccaaacct ttatcagcc 
gagatgttg gttttctat accgaccac agcattact 
accaacatg ctcacgtcc tgggagctg ctggtgctc 
agcaagctg aaatgggac atcatcgcc atcgtgccg 
gtggacttc ctgccgcac ctgctggtg cgcctggac 
ttcgagcgg ctgggcatc aaagccgag atggtcaag 
aagcacgca aagatcctc ataaccctc tgcgcaaaa 
gaatgccga tttacgaat tgttatccg agtctgctg 
gcttgtgct agcgtggtg tcggcgctg tgcggccta 
ggatgggtc aacaagtac caccaatcg caagaagcc 
ctcctcaag acactagcg gatattatc gacgtgcaa 
gaaacggat ttcatgcaa gagttggtg cagaacatc 
gaccaaatg atcaaacag aatttcgag aacgttaaa 
gacaataaa gtgtgtgac gaagtgacg aggtcagaa 
caatgtact cctcctcct ggaaaaatt cgcgactac 
aagacggcg actacgccg accgatgtg catgatgtt 
tgtttttga
    mRNA sequence
    • >TC008270 RA
      ggtaagtta aaatcattg gttacttaa caccagtaa 
cagaaagac ggtaactga aaccaaacc aaaactttt 
ctccaagta aagccccat gcaacccta agtccttgt 
atgtgaaaa aaattcttg tgtgtagtg ttttaaaaa 
aactgtgct ttaaagaaa aatgatgga tatactgcg 
ttgttgcga aacaaccga aaatgaaat tacggcctt 
cgttgacgg cactttgtt gcaagaccg ggtcttaaa 
aaacatgtt acagtctga ataccggtg tgtgccctc 
caacgtgtt tattaatca acgggagat caccgagtc 
tatgatcga gatcgtcgg gggttggat gatggaggt 
atgcgaaga acagacgtg tcaagacga cgtcttcct 
cctctccat gaactacct gtacaggtt cctcaccac 
caccaacat caagaagaa ccagctgca gctgctggg 
ggcggcgtg catgctcat cgcctccaa gttaaggga 
gcccaaacc tttatcagc cgagatgtt ggttttcta 
taccgacca cagcattac taccaacat gctcacgtc 
ctgggagct gctggtgct cagcaagct gaaatggga 
catcatcgc catcgtgcc ggtggactt cctgccgca 
cctgctggt gcgcctgga cttcgagcg gctgggcat 
caaagccga gatggtcaa gaagcacgc aaagatcct 
cataaccct ctgcgcaaa agaatgccg atttacgaa 
ttgttatcc gagtctgct ggcttgtgc tagcgtggt 
gtcggcgct gtgcggcct aggatgggt caacaagta 
ccaccaatc gcaagaagc cctcctcaa gacactagc 
ggatattat cgacgtgca agaaacgga tttcatgca 
agagttggt gcagaacat cgaccaaat gatcaaaca 
gaatttcga gaacgttaa agacaataa agtgtgtga 
cgaagtgac gaggtcaga acaatgtac tcctcctcc 
tggaaaaat tcgcgacta caagacggc gactacgcc 
gaccgatgt gcatgatgt ttgtttttg aaaactata 
gtttaattg tgaatagaa gtgaatcct gcgatgtcg 
ctagttcga aggaaagtg tgcaaagac gtgatggct 
ttaggggaa ggcaataaa ttacgcttg aataaaaga 
aaaaagaac tgttcaatt tctgtacgt ctttttaga 
aatacaaga cttttacag cgggtgaac gttgaaaat 
gtttgagat atactatgt tagtcagtt acgatccta 
agtttctgt tcctaaaac gtgattcga aacgcaaat 
taaattaag caagtttaa caatttgtt tagaagctt 
gcgtagtat gaataacct tcaaagact gctagctct 
aatccggag caatgactt acttaatta tcgttaatc 
gtcttccaa atttgacca agtcaatca atgcaatca 
tgatgagaa aagtatttt tgtcaaact attaaattt 
ttatagtta gtttattaa gaaagtgtg attctaact 
gtaggtatt ttcaatttt atatgtgat caactaaga 
atagtgatt ttaaaattt atttgacaa atatcttat 
tataagggc cttgaacgt acctaaggt tggctttac 
ccaaactcc acgccatgc aaattcacg gaatgtgac 
ctttgcctg gcttggggt ttcgataaa accagcata 
atatgcttg tgcatacga ctatatagc ttattaagg 
caacactgt aaatattta ggaggtagc caattaagc 
actttgaca ttgtacata aatgaccgt ttccaccaa 
ttacactgc caataacta tttataaat tttgctcac 
aatagtcca atattccat atacctcat tttagctct 
cattacaac aacaaaagc cctgtgaat ctatatatt 
gtaactggt attggtttg ttccaccga catttccac 
gcttgatac ttccaaaac cttcctaaa gcaggggaa 
tcttggtgt aacaaaccc tcccagaaa aaactatta 
tattgtaca tagtatata gcgccgatt agcgcacga 
tcaaagaca ttttgtgct tcctcaaac ttccgtttt 
tctcaaaac gcgaattta agtcactat acgccccag 
aattcctct gatcgtgcg ttaaatact tatattgta 
aatagatat ataccacac agaattcta attgtttac 
attcattat aagttaaat tttataaat acaaataaa 
aacctcgat aaaac

    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