Status
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Gene information
General information
TC010491 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_007418.3: 15695564..15709437
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
    		TC010491
    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_01702

    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)

    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): less than 30%

    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: Due to the lack of GFP-Signal, status of tissue, eg. presence of muscles, is not scorable. 
    larval musculature fluorescence not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: Majority of animals still lays in the egg shell. If outside they appear in an u-shape, with the head bent towards the abdomen. All fluorescence is missing, musculature as well as nervous system and eyes.
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     gena triplet seta number increased - Penetrance (percentage of animals/eggs on slide): more than 80%
    gena triplet seta pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    thorax bristle pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010491 RA
      MLRLSNSVR NSCDRFIPL RLNDEISPD PSNFDPLDH 
EVLENTGFI NYAKIRYNR NNYKNALRS ALLPYEPKV 
LNFFPPKKF KVKKTPGME HTWPVKPRE KPVIGLPKT 
VLDMPQFDS TIFHHVCDW SSEGCIATI FQNEVHIWN 
HVTQRRIRI TSTTHRIEY SIKWKNGGT QFAVGLFPS 
SVGIWDVVA NKLICWESC GHYAHKCKV FALEWINAQ 
LLVTGCSLG SLKVFNSEL NKIRESTFA HTGAILTIV 
RSCDGRFIA TTGMDKMMI VWRIPTLEK HFTFETDTI 
SRAVAWHPW RGSLLAVGV GQRNGHIVI FNINKKSSI 
AEEKFTYRN ATVNSLTFN PISGELVAS YFVRDARDR 
RKGVGVVVV FSNIDRIEE ELHLHDGPI LYLLWGNKG 
RNLASASAD ENLCIWDFF GKMDEQSQN GRKKKEKNT 
PTSSVLRST IR
    CDS sequence
    • >TC010491 RA
      atgctgcgt ttgtccaat tctgtaaga aactcttgt 
gatagattt attccgctt cgcctcaac gacgaaata 
tcaccagac ccatcaaac ttcgatccc ttagaccac 
gaagtattg gaaaacacc ggctttatc aattatgcc 
aaaatccga tacaaccgc aacaactac aaaaacgcg 
ttacgaagc gctttatta ccgtacgaa ccgaaagtt 
ttgaatttt tttccaccg aaaaaattc aaagtgaag 
aaaacaccg ggcatggaa catacttgg ccggttaaa 
ccgagggaa aagccggtc attggcttg ccgaagact 
gtcctagac atgccccaa ttcgattcc actatcttt 
caccatgtg tgtgattgg agcagtgaa ggctgtatt 
gccaccatt ttccaaaac gaggttcac atatggaac 
catgttacg cagagaaga ataagaatt acgtctaca 
actcatcga atagagtac tccatcaag tggaagaat 
ggagggacg cagtttgcg gtcggtttg ttccccagc 
agtgtcgga atttgggat gtagtagca aacaagctc 
atttgttgg gaatcctgt ggccactac gcccacaag 
tgcaaagtc tttgccctc gagtggata aatgcccaa 
cttttggtc accggatgt tctctagga tctttgaaa 
gtcttcaat tctgagcta aacaaaatc agggagtcg 
acttttgct cacactggt gccatttta accatcgta 
agatcttgc gatggcaga tttattgca acgactgga 
atggataaa atgatgatt gtgtggaga attccaact 
ttggagaaa catttcacg tttgaaacg gacacaatt 
agccgggca gtggcatgg cacccctgg cgtggctct 
cttctggca gtaggagta ggtcaaagg aatggacac 
atagtcatt tttaatata aataagaaa agttctatt 
gcggaggag aaatttact tatcgcaat gctacagtc 
aattctctc accttcaat ccaatcagt ggggagctt 
gtggcgagt tatttcgtc cgcgatgcg agagacaga 
cgcaagggg gtcggagtt gtggtcgtt ttctcaaat 
attgaccga atagaagag gaactgcat ctccacgat 
ggtccgatt ttgtatcta ttgtgggga aacaaaggt 
cggaattta gcgtcggca agtgccgac gagaatttg 
tgtatttgg gattttttc ggaaaaatg gatgaacaa 
agccaaaac ggaaggaag aaaaaagaa aaaaataca 
cctacaagt tcggtacta cgttctact attagataa
    mRNA sequence
    • >TC010491 RA
      ttgcacaaa tttttagat ttttgtttt cagttttta 
tgaacaata tttatcatt tgtgtcgtg tctctcgtt 
tgaaaattt taaaaatgc tgcgtttgt ccaattctg 
taagaaact cttgtgata gatttattc cgcttcgcc 
tcaacgacg aaatatcac cagacccat caaacttcg 
atcccttag accacgaag tattggaaa acaccggct 
ttatcaatt atgccaaaa tccgataca accgcaaca 
actacaaaa acgcgttac gaagcgctt tattaccgt 
acgaaccga aagttttga atttttttc caccgaaaa 
aattcaaag tgaagaaaa caccgggca tggaacata 
cttggccgg ttaaaccga gggaaaagc cggtcattg 
gcttgccga agactgtcc tagacatgc cccaattcg 
attccacta tctttcacc atgtgtgtg attggagca 
gtgaaggct gtattgcca ccattttcc aaaacgagg 
ttcacatat ggaaccatg ttacgcaga gaagaataa 
gaattacgt ctacaactc atcgaatag agtactcca 
tcaagtgga agaatggag ggacgcagt ttgcggtcg 
gtttgttcc ccagcagtg tcggaattt gggatgtag 
tagcaaaca agctcattt gttgggaat cctgtggcc 
actacgccc acaagtgca aagtctttg ccctcgagt 
ggataaatg cccaacttt tggtcaccg gatgttctc 
taggatctt tgaaagtct tcaattctg agctaaaca 
aaatcaggg agtcgactt ttgctcaca ctggtgcca 
ttttaacca tcgtaagat cttgcgatg gcagattta 
ttgcaacga ctggaatgg ataaaatga tgattgtgt 
ggagaattc caactttgg agaaacatt tcacgtttg 
aaacggaca caattagcc gggcagtgg catggcacc 
cctggcgtg gctctcttc tggcagtag gagtaggtc 
aaaggaatg gacacatag tcattttta atataaata 
agaaaagtt ctattgcgg aggagaaat ttacttatc 
gcaatgcta cagtcaatt ctctcacct tcaatccaa 
tcagtgggg agcttgtgg cgagttatt tcgtccgcg 
atgcgagag acagacgca agggggtcg gagttgtgg 
tcgttttct caaatattg accgaatag aagaggaac 
tgcatctcc acgatggtc cgattttgt atctattgt 
ggggaaaca aaggtcgga atttagcgt cggcaagtg 
ccgacgaga atttgtgta tttgggatt ttttcggaa 
aaatggatg aacaaagcc aaaacggaa ggaagaaaa 
aagaaaaaa atacaccta caagttcgg tactacgtt 
ctactatta gataatttt aatgtgttt gtttgtgat 
tttaaatta tcaaaagcg ggtcttaag tacagtttt 
ataatttta catttgaat aaattttta caagagtt

    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