Status
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Gene information
General information
TC008007 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: 3798815..3802510
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
    		TC008007
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04413

    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: 70.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 6 (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
     maxilla orientation irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    labium orientation irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    labium shape irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    maxilla shape irregular - Penetrance (percentage of animals/eggs on slide): more than 80%
    head not present - Penetrance (percentage of animals/eggs on slide): more than 80%
    legs sometimes number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs sometimes shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax not present - Penetrance (percentage of animals/eggs on slide): more than 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008007 RA
      MSSSISPLH RAVTSGDVS LVKRLLAAG SDPNAADSH 
GRTPIVFAE CIKNDELFE QIVELLIAH GADVNACND 
TPLYSAVFY GKKHLVERL LKAGAGVRS NNLLHIVAE 
KGDDTILAL LLGDKRSEE MIDGEDANG RTSAFLAAQ 
HDHKRCLKM LIAKGADLS RADLQGESV MEAIFENMT 
KPVEFLTEV LDASVTLER GEKNKYFVD FGFLAPRKT 
GGQMSVISR LLVSASEEE KTSVLQHPV IELYLSIKW 
SRMCYFFYL WIFAYVLFV LSFSVYVML CRDYRNLDV 
LVTASRWIS IWSGACLLG HGVLECCLT HGNHFRKYE 
MWLNLACTS LSLIVAIAG KRDGNREDE LAAPNWVLH 
VTSIAILLS WTELMLLIG RLPTYGYYA LMFSAVLQN 
VIRVLLAFL CLVVGFSLS FSIEFANCS EFNDPWRAL 
VKTTVMMMG EFDYSDLFT GLERPASRV IFLLFVILT 
SIVLMNLMV GLAVSDIQC LQMVSHARK LEKMADFLA 
QLEKVLTSE KFKKRWLPQ IVQKILRRN FIDVRYELE 
TSARFRRSK KLSSKLIDS LVAIAKSQK NRRLKFNED 
F
    CDS sequence
    • >TC008007 RA
      atgtcctca tcgatttct ccgctgcat cgagccgtc 
acttccggg gacgtttcc ctcgtcaag cgtcttctc 
gccgctggg agcgacccc aacgccgcc gactcccac 
ggccggacc ccaatcgtc ttcgcagag tgcatcaaa 
aacgacgaa cttttcgaa caaatcgtc gagctttta 
attgcgcat ggggccgac gtcaacgct tgcaacgat 
actcctttg tacagcgcc gtcttctac ggcaaaaaa 
cacctagtg gagcggctg ctcaaagcc ggtgctggt 
gtccggagc aataattta ctccacatc gtggctgag 
aaaggggat gacacaatc ctggcgctg ctcctcgga 
gataagaga agtgaggaa atgatcgat ggcgaggac 
gctaacggc aggacatct gctttcctg gccgcccaa 
cacgaccat aaacgctgt ttgaagatg ctaatcgca 
aaaggggct gatttaagc cgcgctgac ctccaaggc 
gaaagtgtg atggaggcg atttttgaa aatatgaca 
aagccggtc gagttcttg accgaggtt ttggacgca 
agtgtgaca ctcgagagg ggagaaaaa aacaaatac 
tttgttgat tttgggttt ctggcgcct cggaaaact 
gggggccag atgtcggtc atttcgcgt ctgcttgtt 
tcagccagc gaagaggag aaaacctct gtgctgcaa 
cacccggtg atcgagctg tacctgtcg ataaagtgg 
tcgagaatg tgctatttc ttctatttg tggatcttc 
gcttatgta cttttcgtg ctttcgttt tccgtgtat 
gtgatgttg tgtcgcgat taccggaat cttgacgtg 
ctggtgacg gcttccaga tggatatcg atctggagc 
ggcgcgtgc cttttgggc cacggtgta ttagagtgc 
tgtctgacg cacgggaat cacttcagg aaatacgaa 
atgtggttg aatctcgcc tgcacatcg ctctcttta 
attgtggca atcgcggga aagcgtgac gggaataga 
gaggatgaa ctggctgcg cctaattgg gtgttgcac 
gtaaccagc atagcgatt ctcctgtca tggacagaa 
ttaatgttg ttaattggc agacttcca acgtacgga 
tattatgca ctcatgttt tccgccgtc ttacagaac 
gttattagg gttttgttg gcattcctg tgcctggtg 
gtgggtttc tctctaagt ttttcgatc gagtttgca 
aactgtagc gaattcaac gacccttgg cgcgccctc 
gtcaagact acagtcatg atgatggga gaattcgac 
tactcggac ttgttcacc ggcctcgaa agacccgct 
tcgagggtc atttttctc ttatttgtc atcctcacg 
agcattgtt ttaatgaac ctgatggtg ggcctcgct 
gtgagcgac atccagtgc ttgcaaatg gtcagtcac 
gcccgcaag ttggaaaaa atggccgac tttctggcc 
cagttagag aaagtcttg acttcggaa aaattcaaa 
aagcgctgg ctgccccaa atcgtacaa aaaatcctc 
cggaggaat tttatcgat gttaggtac gaactggag 
acgtcggcg aggtttaga cgctcgaag aaactttcc 
tccaagctt atagattcg ctcgtagcg attgcgaaa 
tcgcaaaaa aacaggcgc ttaaagttt aacgaggac 
ttttga
    mRNA sequence
    • >TC008007 RA
      taggcgcga taagagttt attaatctt gaatggtct 
gcggtcggg ctccaattc acatttatt accttgttc 
ctcgatgaa gtggtcgtg ttttcatta tgtcctcat 
cgatttctc cgctgcatc gagccgtca cttccgggg 
acgtttccc tcgtcaagc gtcttctcg ccgctggga 
gcgacccca acgccgccg actcccacg gccggaccc 
caatcgtct tcgcagagt gcatcaaaa acgacgaac 
ttttcgaac aaatcgtcg agcttttaa ttgcgcatg 
gggccgacg tcaacgctt gcaacgata ctcctttgt 
acagcgccg tcttctacg gcaaaaaac acctagtgg 
agcggctgc tcaaagccg gtgctggtg tccggagca 
ataatttac tccacatcg tggctgaga aaggggatg 
acacaatcc tggcgctgc tcctcggag ataagagaa 
gtgaggaaa tgatcgatg gcgaggacg ctaacggca 
ggacatctg ctttcctgg ccgcccaac acgaccata 
aacgctgtt tgaagatgc taatcgcaa aaggggctg 
atttaagcc gcgctgacc tccaaggcg aaagtgtga 
tggaggcga tttttgaaa atatgacaa agccggtcg 
agttcttga ccgaggttt tggacgcaa gtgtgacac 
tcgagaggg gagaaaaaa acaaatact ttgttgatt 
ttgggtttc tggcgcctc ggaaaactg ggggccaga 
tgtcggtca tttcgcgtc tgcttgttt cagccagcg 
aagaggaga aaacctctg tgctgcaac acccggtga 
tcgagctgt acctgtcga taaagtggt cgagaatgt 
gctatttct tctatttgt ggatcttcg cttatgtac 
ttttcgtgc tttcgtttt ccgtgtatg tgatgttgt 
gtcgcgatt accggaatc ttgacgtgc tggtgacgg 
cttccagat ggatatcga tctggagcg gcgcgtgcc 
ttttgggcc acggtgtat tagagtgct gtctgacgc 
acgggaatc acttcagga aatacgaaa tgtggttga 
atctcgcct gcacatcgc tctctttaa ttgtggcaa 
tcgcgggaa agcgtgacg ggaatagag aggatgaac 
tggctgcgc ctaattggg tgttgcacg taaccagca 
tagcgattc tcctgtcat ggacagaat taatgttgt 
taattggca gacttccaa cgtacggat attatgcac 
tcatgtttt ccgccgtct tacagaacg ttattaggg 
ttttgttgg cattcctgt gcctggtgg tgggtttct 
ctctaagtt tttcgatcg agtttgcaa actgtagcg 
aattcaacg acccttggc gcgccctcg tcaagacta 
cagtcatga tgatgggag aattcgact actcggact 
tgttcaccg gcctcgaaa gacccgctt cgagggtca 
tttttctct tatttgtca tcctcacga gcattgttt 
taatgaacc tgatggtgg gcctcgctg tgagcgaca 
tccagtgct tgcaaatgg tcagtcacg cccgcaagt 
tggaaaaaa tggccgact ttctggccc agttagaga 
aagtcttga cttcggaaa aattcaaaa agcgctggc 
tgccccaaa tcgtacaaa aaatcctcc ggaggaatt 
ttatcgatg ttaggtacg aactggaga cgtcggcga 
ggtttagac gctcgaaga aactttcct ccaagctta 
tagattcgc tcgtagcga ttgcgaaat cgcaaaaaa 
acaggcgct taaagttta acgaggact tttgaaaca 
ctcctgtat caattattg cagttaatt aacaaaaat 
tcgctgctt cgagctaaa taaattgtt cagtgattg

    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