Status
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Gene information
General information
TC007228 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: 7226368..7228081
Sequence information
Transcripts / Proteins (2) 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
    		TC007228
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01151

    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
    previtellogenic egg chamber not present - Number of animals showing the phenotype: 1

    vitellarium size decreased - Number of animals showing the phenotype: 1
    vitellogenic egg chamber degenerated - Number of animals showing the phenotype: 3

    vitellarium potentially size increased - Number of animals showing the phenotype: 2

    lateral oviduct necrotic - Number of animals showing the phenotype: 4

    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
    • >TC007228 RA
      MEQKQTDVH LRAMLNSPA RFTPAVPTP 
DWSAGPAVP PSPQIPGKS NMIVATPGS 
AAGEPHTNI TIQNCVTTV DLNTKLDLA 
LINARTRNS EYNPARFHG LIMRLRDPR 
TTALIFQTG KIVCTGAKS EQDALLASK 
KFARIIQKL GFDIKFDNF KIQNLVATC 
DLRFPIKLE SLSLLHGQF CSYEPELFP 
GIIYRMIKP HLCLLIFVN GKIVFTGSK 
SREGIKESL DNIYPILRS FKKN
    • >TC007228 RB
      MEQKQTDVH LRAMLNSPA RFTPAVPTP 
DWSAGPAVP PSIPGKSNM IVATPGSAA 
GEPHTNITI QNCVTTVDL NTKLDLALI 
NARTRNSEY NPARFHGLI MRLRDPRTT 
ALIFQTGKI VCTGAKSEQ DALLASKKF 
ARIIQKLGF DIKFDNFKI QNLVATCDL 
RFPIKLESL SLLHGQFCS YEPELFPGI 
IYRMIKPHL CLLIFVNGK IVFTGSKSR 
EGIKESLDN IYPILRSFK KN
    CDS sequence
    • >TC007228 RA
      atggaacaa aaacaaaca gacgtgcac ttgcgtgca 
atgttgaat agccctgca cgttttact ccagctgtc 
cctaccccg gactggtcc gcaggccca gctgtgccc 
ccttcacct cagattccc ggaaaatct aacatgatt 
gtggcaact ccaggttca gcagctggt gaacctcat 
acaaacata acaatacaa aattgcgta accacggtt 
gatctcaat acaaaacta gacctggcg ttaattaac 
gcgaggacc agaaactcg gaatataac ccagcacgg 
tttcatggg ttaattatg agacttaga gatccaaga 
accacagct ttgatattc cagactggt aaaattgta 
tgcactggg gctaaaagt gagcaagat gcgctcctg 
gcgtctaaa aagtttgcc cggattata caaaaattg 
ggctttgat atcaaattt gacaacttt aagatacag 
aatctggtg gcgacgtgc gatttgaga ttccccata 
aaattggaa agtttaagt ttattgcat ggacagttt 
tgtagttac gaacctgaa ctttttcct ggaataatc 
taccgcatg attaaacca cacttgtgt ttgcttatt 
tttgtcaat gggaaaatt gttttcaca ggctccaag 
tcgcgagaa ggaattaag gaatcgctg gataatatt 
tacccaatt ttacgtagc tttaagaaa aattaa
    • >TC007228 RB
      atggaacaa aaacaaaca gacgtgcac ttgcgtgca 
atgttgaat agccctgca cgttttact ccagctgtc 
cctaccccg gactggtcc gcaggccca gctgtgccc 
ccttcaatt cccggaaaa tctaacatg attgtggca 
actccaggt tcagcagct ggtgaacct catacaaac 
ataacaata caaaattgc gtaaccacg gttgatctc 
aatacaaaa ctagacctg gcgttaatt aacgcgagg 
accagaaac tcggaatat aacccagca cggtttcat 
gggttaatt atgagactt agagatcca agaaccaca 
gctttgata ttccagact ggtaaaatt gtatgcact 
ggggctaaa agtgagcaa gatgcgctc ctggcgtct 
aaaaagttt gcccggatt atacaaaaa ttgggcttt 
gatatcaaa tttgacaac tttaagata cagaatctg 
gtggcgacg tgcgatttg agattcccc ataaaattg 
gaaagttta agtttattg catggacag ttttgtagt 
tacgaacct gaacttttt cctggaata atctaccgc 
atgattaaa ccacacttg tgtttgctt atttttgtc 
aatgggaaa attgttttc acaggctcc aagtcgcga 
gaaggaatt aaggaatcg ctggataat atttaccca 
attttacgt agctttaag aaaaattaa
    mRNA sequence
    • >TC007228 RA
      aaataatca cagaaaaat ggaacaaaa acaaacaga 
cgtgcactt gcgtgcaat gttgaatag ccctgcacg 
ttttactcc agctgtccc taccccgga ctggtccgc 
aggcccagc tgtgccccc ttcacctca gattcccgg 
aaaatctaa catgattgt ggcaactcc aggttcagc 
agctggtga acctcatac aaacataac aatacaaaa 
ttgcgtaac cacggttga tctcaatac aaaactaga 
cctggcgtt aattaacgc gaggaccag aaactcgga 
atataaccc agcacggtt tcatgggtt aattatgag 
acttagaga tccaagaac cacagcttt gatattcca 
gactggtaa aattgtatg cactggggc taaaagtga 
gcaagatgc gctcctggc gtctaaaaa gtttgcccg 
gattataca aaaattggg ctttgatat caaatttga 
caactttaa gatacagaa tctggtggc gacgtgcga 
tttgagatt ccccataaa attggaaag tttaagttt 
attgcatgg acagttttg tagttacga acctgaact 
ttttcctgg aataatcta ccgcatgat taaaccaca 
cttgtgttt gcttatttt tgtcaatgg gaaaattgt 
tttcacagg ctccaagtc gcgagaagg aattaagga 
atcgctgga taatattta cccaatttt acgtagctt 
taagaaaaa ttaagtaga ctggttctt tgagatatt 
actaaattt ttaataatg gatattggt ccatagagg 
gcactggta acaatttct ctcttttac gcaaatgac 
gtaataaaa ttattttta cacgtgtat tcctcaccg 
taattattt cttgattca agttaagac ttctacgcc 
ctgttattg tatttatgt caaaggttt tatagattt 
ttaaaatag ttaatagaa cgatgttat tagttttac 
cgctatttt acagtgaag tactactat taaaatcga 
tcacctgag gccgcaaca gtcataatt tgaatcgga 
aactgagtc aatctttgt gagcaatta ttcaaaaca 
cgagttttt atttaggtc ggcgttaat agccgtaga 
catacgtaa ggcttcaaa cagccaatt ttgttttat 
taagttttc ttcgatttt attttgtta attgaaaat 
aaattgtac ttttgtaaa tctagcgta tttcaatat 
cgattgaac tttgttcat tccaaggca ataatccga 
accaaaagg ttgaaactc ccctttatt attcctctt 
ttgccttct ccttttctt tgtacaaga tagaaagga 
taaatttga tcaaatcgt accctttga gatttttct 
aactcagat aaactgttt tataacaat acatatgtt 
aggtcgtta atttattta ttattatta gattaggcc 
acttaggat cacggttta tctgtattg tatttcatt 
gtttgtata ttttttgtt agcaataaa ctgcgtttg 
atatt
    • >TC007228 RB
      aaataatca cagaaaaat ggaacaaaa acaaacaga 
cgtgcactt gcgtgcaat gttgaatag ccctgcacg 
ttttactcc agctgtccc taccccgga ctggtccgc 
aggcccagc tgtgccccc ttcaattcc cggaaaatc 
taacatgat tgtggcaac tccaggttc agcagctgg 
tgaacctca tacaaacat aacaataca aaattgcgt 
aaccacggt tgatctcaa tacaaaact agacctggc 
gttaattaa cgcgaggac cagaaactc ggaatataa 
cccagcacg gtttcatgg gttaattat gagacttag 
agatccaag aaccacagc tttgatatt ccagactgg 
taaaattgt atgcactgg ggctaaaag tgagcaaga 
tgcgctcct ggcgtctaa aaagtttgc ccggattat 
acaaaaatt gggctttga tatcaaatt tgacaactt 
taagataca gaatctggt ggcgacgtg cgatttgag 
attccccat aaaattgga aagtttaag tttattgca 
tggacagtt ttgtagtta cgaacctga actttttcc 
tggaataat ctaccgcat gattaaacc acacttgtg 
tttgcttat ttttgtcaa tgggaaaat tgttttcac 
aggctccaa gtcgcgaga aggaattaa ggaatcgct 
ggataatat ttacccaat tttacgtag ctttaagaa 
aaattaagt agactggtt ctttgagat attactaaa 
tttttaata atggatatt ggtccatag agggcactg 
gtaacaatt tctctcttt tacgcaaat gacgtaata 
aaattattt ttacacgtg tattcctca ccgtaatta 
tttcttgat tcaagttaa gacttctac gccctgtta 
ttgtattta tgtcaaagg ttttataga tttttaaaa 
tagttaata gaacgatgt tattagttt taccgctat 
tttacagtg aagtactac tattaaaat cgatcacct 
gaggccgca acagtcata atttgaatc ggaaactga 
gtcaatctt tgtgagcaa ttattcaaa acacgagtt 
tttatttag gtcggcgtt aatagccgt agacatacg 
taaggcttc aaacagcca attttgttt tattaagtt 
ttcttcgat tttattttg ttaattgaa aataaattg 
tacttttgt aaatctagc gtatttcaa tatcgattg 
aactttgtt cattccaag gcaataatc cgaaccaaa 
aggttgaaa ctccccttt attattcct cttttgcct 
tctcctttt ctttgtaca agatagaaa ggataaatt 
tgatcaaat cgtaccctt tgagatttt tctaactca 
gataaactg ttttataac aatacatat gttaggtcg 
ttaatttat ttattatta ttagattag gccacttag 
gatcacggt ttatctgta ttgtatttc attgtttgt 
atatttttt gttagcaat aaactgcgt ttgatatt

    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