Status
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Gene information
General information
TC008845 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: 10730133..10733298
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
    		TC008845
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_10376

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    Fertility
    mature egg potentially not present - Number of animals showing the phenotype: 4
    previtellogenic egg chamber not present - Number of animals showing the phenotype: 3

    tropharium structure irregular - Number of animals showing the phenotype: 3

    vitellogenic egg chamber partially position irregular - Number of animals showing the phenotype: 1

    vitellogenic egg chamber potentially degenerated - Number of animals showing the phenotype: 4
    follicular epithelium potentially partially amount increased - Number of animals showing the phenotype: 3

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): more than 80%
    head appendages position irregular - Penetrance (percentage of animals/eggs on slide): more than 80%
    legs size decreased - Penetrance (percentage of animals/eggs on slide): more than 80%
    legs segment potentially number decreased - Penetrance (percentage of animals/eggs on slide): more than 80%
    mesothoracic tracheal opening size increased - Penetrance (percentage of animals/eggs on slide): more than 80%
    thorax circumference decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    abdomen partially dorsalnot fused - Penetrance (percentage of animals/eggs on slide): more than 80%
    abdomen tracheal opening size increased - Penetrance (percentage of animals/eggs on slide): more than 80%

    abdomen circumference decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae - 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: % (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
    • >TC008845 RA
      MWKYIAGTV VVGSVTYGL YRYFAGGVC KCTARLDGL 
VVVITGGNS GIGKALAVE LAQRGATLV LACRDVEKG 
INAKKDILL SLNNKNVKI FVKRLDLAS VSSILKFSE 
SLKCEFSEI YALVNNAGI FYHPHTVTE DGYEITFQT 
NYLGHFILT HNLLTLLKK ADHSRIVNV TSEAHRLVN 
VYDLNAITK SQTEFRSHL VAYGVTKLA LILFTRYLF 
KKLSNTNII VNAANPGNV ETSLFRYFP FLSNKFLYG 
LQWPIRQIV VKSPRQGAQ TILHCLLTS NRTTGQYYS 
DCKLSLPSP LALDDKLAK DYYELTLEI LGDRFSTES 
EC
    CDS sequence
    • >TC008845 RA
      atgtggaaa tacatcgcg ggtacagtc gtcgtaggt 
tcagtaact tacggtcta tatcgatat ttcgctgga 
ggtgtctgt aaatgtaca gcgcgactg gacggttta 
gtcgtggtc ataacaggt ggaaactct ggaattggt 
aaagcccta gccgtagaa ttggcccaa agaggtgcg 
actcttgtt cttgcatgc agagacgtc gaaaaaggt 
atcaacgca aaaaaagac attctacta agtttgaat 
aataaaaac gtgaagata tttgtgaaa cgactggat 
cttgcctca gtgagcagc attttgaaa ttttcggaa 
tctctaaag tgcgaattt agcgagatt tatgcattg 
gttaacaat gctgggatt ttttaccac ccacacaca 
gtaacagag gatgggtat gaaataaca ttccagact 
aattactta ggccatttt atcttaacg cacaattta 
ctcaccttg ttgaaaaaa gcggaccat tcccgcatt 
gttaacgtg acgtctgaa gcccacaga ttagtaaac 
gtttatgac ttaaacgcc atcacaaaa tcacaaact 
gagtttcgg tcgcattta gtcgcttat ggagtgacc 
aaactcgcg ttaatttta tttacgcgc tacttattc 
aagaaattg tcaaacacg aacataata gtgaacgct 
gctaatcca ggcaacgtg gaaacgagc cttttccgg 
tacttcccc ttcctgagc aataagttc ttgtacggc 
cttcagtgg ccaatcaga caaatcgtc gtcaagagc 
ccccgacaa ggggcccaa accattttg cactgtttg 
ttgacttca aacaggaca actgggcag tattacagt 
gactgcaaa ttgtctttg ccaagccct ctcgctttg 
gacgataag cttgccaag gattattat gaactcact 
ttggagata ctaggcgat aggtttagc acagagtct 
gagtgttaa
    mRNA sequence
    • >TC008845 RA
      atcgataac tgcttatcc atcaatgtg tattgtgtg 
ttgcctatc aatactttt taacttttt atcaaaaaa 
gttgttatg agtctcaaa ataatttta tattttatt 
acttctatt cgaaataca cttatccag tggaaggtc 
ctggtctat taatattta gactcgaca atatttcag 
cgttatatc tctttgccc gtttggttt tgaaagtct 
ctttcctag gttctctaa ccttggtgt gttgcaaca 
aattcatct gattctcaa gtaattgag tagaagata 
aaccttccg gaatatgaa catatctaa tatttctgg 
cacttacga aaaagtcct taaaataat gccgttgtc 
ccctgggat catagaaca caacatctc ccatttcta 
cattcatga gcccatcaa catgtttta ttaaaccag 
atacacaac tttcatttc ttagatcaa ttactgtat 
gtttatttt ctagagctt taacgagac tggtcaggt 
agttgtgaa aatagtact tttctttct ttgagccaa 
aatcctgca ttttcaggc tcttcttgc aaataaaaa 
gcttaggtt atggtgcga gaaataaat aataagaat 
tacctacct ggtaagtga caattaatt ataccttaa 
tttttttat cacttatta ctatttagt ctcggggca 
ctacttatt catccaaat tttattaca aaaacataa 
aggttattt tttattttg actgtagta caaatgtac 
aaatttgta ggtccagtg ctccatcaa ttcccacgt 
gatgttaat taaatttaa cgagaaaat aaataaaat 
aactaattc caaagttat aagctgcgg tcaggaatc 
gaataatct caaatctta ataaacgca aacaaattt 
ggtcgcctc tttatatcg ttagaacta cctttggca 
cctgtgtac atgagaact acagtacca ggagtgaaa 
ttttcacca ttgtggtgc aaaaagcct ctcttgata 
tgtttactg ttaaggaca agtgataag tgataactc 
ttatcacct gtttcaaag caaatagtt gaaaaaata 
tgtggaaat acatcgcgg gtacagtcg tcgtaggtt 
cagtaactt acggtctat atcgatatt tcgctggag 
gtgtctgta aatgtacag cgcgactgg acggtttag 
tcgtggtca taacaggtg gaaactctg gaattggta 
aagccctag ccgtagaat tggcccaaa gaggtgcga 
ctcttgttc ttgcatgca gagacgtcg aaaaaggta 
tcaacgcaa aaaaagaca ttctactaa gtttgaata 
ataaaaacg tgaagatat ttgtgaaac gactggatc 
ttgcctcag tgagcagca ttttgaaat tttcggaat 
ctctaaagt gcgaattta gcgagattt atgcattgg 
ttaacaatg ctgggattt tttaccacc cacacacag 
taacagagg atgggtatg aaataacat tccagacta 
attacttag gccatttta tcttaacgc acaatttac 
tcaccttgt tgaaaaaag cggaccatt cccgcattg 
ttaacgtga cgtctgaag cccacagat tagtaaacg 
tttatgact taaacgcca tcacaaaat cacaaactg 
agtttcggt cgcatttag tcgcttatg gagtgacca 
aactcgcgt taattttat ttacgcgct acttattca 
agaaattgt caaacacga acataatag tgaacgctg 
ctaatccag gcaacgtgg aaacgagcc ttttccggt 
acttcccct tcctgagca ataagttct tgtacggcc 
ttcagtggc caatcagac aaatcgtcg tcaagagcc 
cccgacaag gggcccaaa ccattttgc actgtttgt 
tgacttcaa acaggacaa ctgggcagt attacagtg 
actgcaaat tgtctttgc caagccctc tcgctttgg 
acgataagc ttgccaagg attattatg aactcactt 
tggagatac taggcgata ggtttagca cagagtctg 
agtgttaat taatttaat caaaaatgt ggatctcac 
ctgatggaa aatttcaca aattaattg tagttgaag 
gtgattggg gtaaaaagc catcggaac agactgaat 
gtacaatat ttgtgtcag attgtccag actcgttct 
tagagtata ataacacga ctgtagtga taggtgata 
gtgataatg agataagac gaaatttag atttatgtt 
taattacaa tgaacgagg gcgaaacgg ccaagttca 
gaatcaccg cggaaaatg tatcattca ctcttaagc 
tagaaaagt tgaaattca atggctaca tttacgaat 
ggagtgcga aaaagaaat acgaaattg cacaacacc 
acaaagaaa ggggtgtgg agttatata aacaaaaca 
ggggcaaag acgccgcgc acagattta tcaaaggtt 
tgaaagtct tgtcttcga taccaattg atgctgaaa 
caccacccg aacaaattg agacaatcc ctcttgaag 
atatttata aattaaaag ccaatttgt acaataact 
tagcttcgt tttacttga aaaaggaag attggctgc 
ttactatag acacctgca aacgcgttt ttgattttg 
atagtggta gtattaagg cacattata aacttgctg 
ttgcttata ttaaagaca aaaatttcg aagcggctg 
aaaaagagc tggacgttg ttttagctg ctgaaccta 
gcaataagg ccgccagtg accacatga aacatgtca 
aggaggaac tgcgtaaag ccaacgcta aatttaata 
tgatggtta agaaaatgt tcgcttagc tgtgccata 
gattaggat gatgtattt ttttagaat aaatgttca 
gtctcaga

    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