Status
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Gene information
General information
TC007006 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: 12117772..12124190
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
    		TC007006
    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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    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_01106

    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
    vitellogenic egg chamber complete not present - Number of animals showing the phenotype: 4
    ovary size decreased - 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: 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: 4 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    delayed (still prepupa) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    Pupal morphology
    wings size decreased - Number of animals showing the phenotype: 2

    legs orientation irregular - Number of animals showing the phenotype: 2
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007006 RA
      MALHITKQL LTICKPQTR LLSGLPKLK QTEAPCVIS 
SRRPRLNHY LNMIYQNFD EIPLVSKGW NHSKSKGDS 
FTVKPVSTP DAQTIPLNS LNIDSKLIE ALKKRNIET 
ATDFQANAF SLFDKNKHL LLAAETGSG KTIAYLLPI 
ICNLITNKT PKLNTPQAL ILVPNRELA YQVGEVAEA 
LAESLLNVK IIVGGRTKK IMMNPEFGE VDILIGTPG 
ALGKLCTVG VYKLEEVQF CVLDEADTL IDDSFVDRI 
VSIIRRMPL AKTILVSAT MPKTLPEAL KPIESNMEQ 
LVSPKLHKP LLNITQKFM RITRSQKPS HLLQIAKSN 
KRPMMIFTN RNETCNWLA MFLRENGVS CANINGDMN 
YAIRIEQWN RFIRGETMI LSATDVGSR GLDTTQVEH 
VLNYDFPSY AADYLHRIG RIGRLGSSK MCKATNFIS 
GPEEVRLVQ QIELAIRKN QPLQNVDGN ITNIVQKKI 
QKGMRQAM
    CDS sequence
    • >TC007006 RA
      atggctctg cacattacc aaacaactt ctcacaata 
tgtaagccc caaacgaga ctcttgtcg ggcttaccg 
aagttgaaa caaacagaa gccccatgt gtcataagc 
tccagacgt ccaagactc aaccactat ttgaacatg 
atttaccag aacttcgac gaaatccct ttggtttca 
aaaggctgg aaccactcg aaatctaaa ggcgattcc 
ttcactgtt aaacctgta agtacccct gacgcgcaa 
accatccct ttgaattca ctaaacatt gattcaaaa 
ctaattgag gcgctaaaa aaacgaaac attgaaaca 
gccactgat tttcaagcc aacgctttc tccttattc 
gacaagaac aaacatttg ctgcttgca gccgagaca 
gggtctggt aaaactatt gcatattta ctaccaata 
atttgtaat ttaattacg aataaaacc ccaaaattg 
aacacacct caagctttg attcttgtc cctaatcga 
gaattggcg tatcaggta ggcgaagtg gccgaggca 
cttgctgag tcactcctc aatgtcaaa ataatagta 
gggggaagg actaaaaaa atcatgatg aaccccgaa 
tttggggaa gttgatatt ttgattggc acacctggc 
gcgttaggg aaattgtgc accgtaggg gtgtacaaa 
ctcgaagag gtacaattt tgtgttttg gacgaagct 
gatactcta attgatgat agttttgtt gatcgaatt 
gtgtcaata atacgtcga atgcctcta gccaaaaca 
atacttgtc tcagccacg atgccgaaa accttaccc 
gaagcctta aaaccaatc gaatcaaat atggaacag 
ctagtttcg ccaaaattg cataaaccc ctcctgaac 
attacgcag aagtttatg cgcattaca cgatcgcaa 
aaaccgtcg catttatta caaatcgcc aaaagtaac 
aaacgccca atgatgatt ttcaccaat cgcaacgag 
acgtgcaat tggttggcg atgtttttg cgcgaaaat 
ggtgtttcc tgtgcaaat atcaacggg gatatgaat 
tatgcaatc agaatagaa caatggaat cggtttata 
agaggcgag actatgatt ttgtctgcg acagatgtt 
gggtcaaga gggttggat acgacgcaa gttgagcat 
gtgctaaat tacgatttt ccctcgtat gctgctgat 
tatttgcat aggattgga cgaattgga aggttgggg 
agttcaaag atgtgtaaa gcaacgaat tttatttcg 
gggcctgag gaagttcga ttggtgcaa cagattgag 
ttggcaatt cggaaaaat caacctctt caaaatgtc 
gatggaaac ataacaaat attgtacaa aaaaagata 
caaaaaggg atgcgtcaa gcgatgtaa
    mRNA sequence
    • >TC007006 RA
      tggaaaata atgtgtcac gcgtcagaa atagtaagg 
ttaggttcg tctaacctc gaaatggct ctgcacatt 
accaaacaa cttctcaca atatgtaag ccccaaacg 
agactcttg tcgggctta ccgaagttg aaacaaaca 
gaagcccca tgtgtcata agctccaga cgtccaaga 
ctcaaccac tatttgaac atgatttac cagaacttc 
gacgaaatc cctttggtt tcaaaaggc tggaaccac 
tcgaaatct aaaggcgat tccttcact gttaaacct 
gtaagtacc cctgacgcg caaaccatc cctttgaat 
tcactaaac attgattca aaactaatt gaggcgcta 
aaaaaacga aacattgaa acagccact gattttcaa 
gccaacgct ttctcctta ttcgacaag aacaaacat 
ttgctgctt gcagccgag acagggtct ggtaaaact 
attgcatat ttactacca ataatttgt aatttaatt 
acgaataaa accccaaaa ttgaacaca cctcaagct 
ttgattctt gtccctaat cgagaattg gcgtatcag 
gtaggcgaa gtggccgag gcacttgct gagtcactc 
ctcaatgtc aaaataata gtaggggga aggactaaa 
aaaatcatg atgaacccc gaatttggg gaagttgat 
attttgatt ggcacacct ggcgcgtta gggaaattg 
tgcaccgta ggggtgtac aaactcgaa gaggtacaa 
ttttgtgtt ttggacgaa gctgatact ctaattgat 
gatagtttt gttgatcga attgtgtca ataatacgt 
cgaatgcct ctagccaaa acaatactt gtctcagcc 
acgatgccg aaaacctta cccgaagcc ttaaaacca 
atcgaatca aatatggaa cagctagtt tcgccaaaa 
ttgcataaa cccctcctg aacattacg cagaagttt 
atgcgcatt acacgatcg caaaaaccg tcgcattta 
ttacaaatc gccaaaagt aacaaacgc ccaatgatg 
attttcacc aatcgcaac gagacgtgc aattggttg 
gcgatgttt ttgcgcgaa aatggtgtt tcctgtgca 
aatatcaac ggggatatg aattatgca atcagaata 
gaacaatgg aatcggttt ataagaggc gagactatg 
attttgtct gcgacagat gttgggtca agagggttg 
gatacgacg caagttgag catgtgcta aattacgat 
tttccctcg tatgctgct gattatttg cataggatt 
ggacgaatt ggaaggttg gggagttca aagatgtgt 
aaagcaacg aattttatt tcggggcct gaggaagtt 
cgattggtg caacagatt gagttggca attcggaaa 
aatcaacct cttcaaaat gtcgatgga aacataaca 
aatattgta caaaaaaag atacaaaaa gggatgcgt 
caagcgatg taaaaactg ttttattct aaatataag 
ttaccaaag atcgtgttt atttattgt cctcactgt 
cgctatcac tcgatgata actcttcgt ctatttcaa 
gtctgtttc tattcacta acaaatcac tctcatcct 
cttggtcct ttttattgt cagaaaatt caggtggcc 
atacgttgt cttctttca aacatttga tgtgttcat 
tcgttaata ttcgcacta tttcagctt tgactttat 
cgccttcgg tgattggtt caacaagga cgtaactgc 
cacgtttca cccatatat ttttacgga attttgttg 
gcatggaca ccaaataag tggattggt ttggtgcca 
gaacttcgt gtaagttgt tgcctttgg tgctaatta 
ttcggacga tggtttggt tttcagttg gtaaagaca 
tgtcatcgt ctagtgctt ctttgaaaa cgtgtttcc 
gcttggtct tgcgggaca ttctgcaat gtaaagctt 
tctatcaac aacaaaata aattataca ttcataa

    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