Status
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Gene information
General information
TC001418 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.

NW_015451510.1: 109935..111456
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
    		TC001418
    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_00250

    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: 100.0% (includes death as pupa, adult)

    adult lethality immediately after eclosion - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 8 (9 dpi)
    Days post injection

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

    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: 60.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    delayed (still larva) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC001418 RA
      MATPIKDVI LKENAPVTI LFDKHIEFL RDYGKDDNN 
FEFGMTDYL RVSGMYWGL TALELLDQT HSSPQEEIV 
TYIKNCQDP ETGGISACL GHDPHLLHT LSGVQILAM 
YDRLDAIDV EAVVKYVKS LQQPDGSFT GDKWGEVDT 
RFSFCAVAT LSLLKRLDA VDVDNAVKF VESCMNFDG 
GFGSRPLSE SHAGLIYCC LGFLSITHR LDLVKRDVL 
AWWLCERQL PSGGLNGRP EKLPDVCYS WWVLSSLTI 
LGRLHWISG EKLKKFILA CQDTETGGF ADRPGDVPD 
PYHTVFGLA ALSLLGQAE IKNVNPTYC MPQHVIDSM 
QLSPQILRD
    CDS sequence
    • >TC001418 RA
      atggcaaca ccaataaaa gacgtgatt ttgaaagaa 
aatgcgcca gttacgata cttttcgac aaacacatc 
gaattcctg cgggactac ggcaaagac gacaacaat 
ttcgagttc ggtatgacg gactacctc cgcgtttcc 
ggcatgtac tggggctta acagcgctg gagctcctc 
gaccagaca cattcctcg cctcaggaa gagatcgtc 
acttatatc aaaaactgc caagacccg gaaacgggc 
ggaatcagt gcgtgcttg gggcacgac ccacatttg 
ctccacact ttgagcggc gttcagatt ttagcaatg 
tacgaccga ttggacgca attgatgtc gaggctgtt 
gtgaaatac gtcaagtcg ttgcaacaa cccgacgga 
agttttacg ggagacaaa tggggcgaa gttgatacg 
aggttttcg ttttgtgcg gtggccacc ttgtctctg 
ctcaagaga ctggacgct gttgacgtc gacaacgcc 
gtgaaattt gtcgagtct tgcatgaat ttcgacgga 
gggttcggc tcgcggccg ctgtcggag agccacgcg 
gggttgatt tactgttgt ctggggttt ttgtcaata 
acccaccgt cttgacttg gtgaagagg gacgttcta 
gcgtggtgg ctgtgcgag agacagcta ccgtcgggg 
ggcctcaac ggccggccg gagaagctc cccgacgtt 
tgctactcg tggtgggtt ttgtcctcc ttgactatt 
ttggggcga cttcattgg ataagtggc gagaaatta 
aaaaaattc attctggcg tgtcaagac accgaaact 
gggggcttc gcagaccgg cctggcgac gtgcctgac 
ccttatcac actgttttc ggccttgcg gccctatcg 
ctgctcggc caagccgaa atcaaaaac gtcaatccc 
acttactgt atgccgcaa cacgttatt gatagcatg 
caactatcg cctcaaata ttacgtgat taa
    mRNA sequence
    • >TC001418 RA
      tttgactag caatgaggt tttcaaaac gggcggcaa 
aaattttga actttttca aactgtcag tgttgccaa 
gccaccgac cccaacacg ccacttgtc atcttgaca 
gcaaatatt gtggttatg tttgacaat ggcaacacc 
aataaaaga cgtgatttt gaaagaaaa tgcgccagt 
tacgatact tttcgacaa acacatcga attcctgcg 
ggactacgg caaagacga caacaattt cgagttcgg 
tatgacgga ctacctccg cgtttccgg catgtactg 
gggcttaac agcgctgga gctcctcga ccagacaca 
ttcctcgcc tcaggaaga gatcgtcac ttatatcaa 
aaactgcca agacccgga aacgggcgg aatcagtgc 
gtgcttggg gcacgaccc acatttgct ccacacttt 
gagcggcgt tcagatttt agcaatgta cgaccgatt 
ggacgcaat tgatgtcga ggctgttgt gaaatacgt 
caagtcgtt gcaacaacc cgacggaag ttttacggg 
agacaaatg gggcgaagt tgatacgag gttttcgtt 
ttgtgcggt ggccacctt gtctctgct caagagact 
ggacgctgt tgacgtcga caacgccgt gaaatttgt 
cgagtcttg catgaattt cgacggagg gttcggctc 
gcggccgct gtcggagag ccacgcggg gttgattta 
ctgttgtct ggggttttt gtcaataac ccaccgtct 
tgacttggt gaagaggga cgttctagc gtggtggct 
gtgcgagag acagctacc gtcgggggg cctcaacgg 
ccggccgga gaagctccc cgacgtttg ctactcgtg 
gtgggtttt gtcctcctt gactatttt ggggcgact 
tcattggat aagtggcga gaaattaaa aaaattcat 
tctggcgtg tcaagacac cgaaactgg gggcttcgc 
agaccggcc tggcgacgt gcctgaccc ttatcacac 
tgttttcgg ccttgcggc cctatcgct gctcggcca 
agccgaaat caaaaacgt caatcccac ttactgtat 
gccgcaaca cgttattga tagcatgca actatcgcc 
tcaaatatt acgtgatta aaattgata gatccaacc 
ttatatgct aattttgat aagttttag cccgcacgt 
gattttaat gtatattgg tttaatttt ataatgata 
ataaagccg atttctaag tgatttgtg ttttgtttg 
gactgcggt ccgcataat tgattttga tgatttagg 
tcgagcccg gtgtagcca ttttcaaag tgcctgctt 
tttctccac aactatacg gaaaacgaa cgcgcattt 
agggcggcc gtgtgtcac cacctgccc caagaagtc 
ctcaaattg ggggtactt gcccgggaa gccggtccc 
catgggaga agacacacc gtttgggtg ggtattcaa 
gtcttactc attatcact gctttcaaa ttaaaacta 
gagtctcaa t

    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