Status
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Gene information
General information
TC007869 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: 1977037..1979581
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
    		TC007869
    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_01277

    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: 1 (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: < 20
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007869 RA
      MWPKIIVLS ILLPFLNGQ LYFPDEKSG GYVQMQKEG 
PSEPILPTN LTELRGTTL YEQFVDKII STGILKLTV 
AMEKALTAA SPNNYESIV FAPVNIAGA LALVLLGSN 
GKTFDEIST IMGLATGVD IHNKSQLVH EQFGRLLEK 
LQITSGFDI GRQVNIANA VFVQNNYPI RQIYKNTAE 
MVYRSEVLN VDFETNPKS AEQIINAWV SERTKGKIT 
QILNETPDS STKVILASA MYFKAEWER PFFDGSTKR 
RPFYTNGRG AKSDVMVEM MSNGGLFPY YKDRDLNCE 
IIGFPYKGN QTTMYVVIP TNSDKTKLK ELEDKLDYK 
QVERLVANV KYTGAIVIF PKMRIDTTI DLKKSLKNL 
GVRSLFSPA EANLALLSP GKGAPGTNP VIGNSIQNP 
ISVNTTGND VIIFNRNGE VVNCTQIFN PKSNVSTCE 
QVVTDSSTP QKVVYKKFG NKVGRRIDG EITPRIAET 
LDNVRQYLN QQSNAERFE NPGLYADNV IHKVYMDIT 
ESGTEAAAS TSISLSRDG GRVTVRADV PFLFFIMHE 
ETKTMLFWG SVNTPTPNF K
    CDS sequence
    • >TC007869 RA
      atgtggcct aaaataatc gtcctatcc atactgcta 
ccgtttcta aatggccag ttgtacttc cctgacgaa 
aaaagcggt ggctacgtc cagatgcaa aaagaaggc 
ccatcggag ccaatttta ccgacaaac ctgactgaa 
ctaagagga accacactt tatgaacaa ttcgtagac 
aaaattatt tcaaccgga attctcaaa ctgactgta 
gcgatggaa aaagcccta actgcagca tcgcccaac 
aattacgaa agcattgtg tttgctccc gttaacatt 
gctggagca ctagccctt gtgcttttg ggctcaaat 
ggcaagact tttgacgag atttcgacc atcatgggg 
ctagcaact ggcgttgat attcacaat aagtcccaa 
ctagtccat gaacaattc gggagattg ttggaaaaa 
ctgcagatt acttcaggg tttgatatt gggcgtcaa 
gtcaacatt gcgaacgcc gtttttgtg caaaataat 
taccctatt cgacaaatt tacaaaaac acggctgaa 
atggtttac aggagcgag gttttgaac gtggatttt 
gaaacgaat ccaaaatcg gccgaacaa attataaac 
gcatgggtg tctgaacgg accaaaggc aaaatcacc 
caaattcta aacgaaact cccgacagc tcaaccaaa 
gtgattttg gccagtgct atgtacttc aaagccgag 
tgggagcga ccgtttttt gacgggagc acgaaaaga 
cgtcccttt tataccaac ggtcggggg gccaaaagt 
gacgttatg gtggaaatg atgtcaaac ggtggcttg 
ttcccttac tacaaagac cgggactta aactgcgaa 
ataatcggg tttccgtac aaaggcaac caaaccacc 
atgtacgtt gtaatcccc accaattcg gacaaaacg 
aaattaaaa gaactcgaa gacaagttg gactataag 
caagtcgag cgtttggtc gccaatgtg aaatacacg 
ggggctatc gtcatattt ccgaaaatg cgcatcgac 
acaacgatt gatttgaaa aaatcgctc aaaaattta 
ggcgtgcgt tcgctcttc agtccagct gaggcgaac 
ctagcgctg ctgtccccc ggaaaaggc gctccgggc 
acgaatccg gtcatcggc aactcgatc cagaaccca 
atttcggtc aacacgacc ggaaacgac gtcattata 
ttcaaccgg aacggagaa gtggtcaat tgtacgcaa 
attttcaac ccgaagagc aatgtcagt acttgcgag 
caggtcgtg accgattcc tcaactccg cagaaggtc 
gtgtacaag aagtttggg aataaagtt gggcggagg 
atcgacggg gagataact ccgcgaatt gccgaaact 
ttggataat gttagacag tatttaaat cagcagagc 
aacgcggag aggtttgaa aatccggga ctgtatgct 
gataatgtc attcataag gtgtatatg gatattact 
gagagtggg actgaagcg gccgcttcc acgtcgatt 
agtctgtcg agggatgga ggaagggtc acggttagg 
gccgatgtg ccctttttg tttttcatc atgcatgag 
gagaccaag accatgctg ttttggggg tcggtgaac 
acgcccaca cccaatttc aaataa
    mRNA sequence
    • >TC007869 RA
      cagaggttg tgctgttgg tgctgtgtg gttgtaata 
ctgttttac caaaaattt acgtcttta gacaacttc 
tccttccga taacatgtg ctaatcttt tgtcgcaaa 
taagtgata aacaccata attaatttt aaacgtgag 
tcaagatgt ggcctaaaa taatcgtcc tatccatac 
tgctaccgt ttctaaatg gccagttgt acttccctg 
acgaaaaaa gcggtggct acgtccaga tgcaaaaag 
aaggcccat cggagccaa ttttaccga caaacctga 
ctgaactaa gaggaacca cactttatg aacaattcg 
tagacaaaa ttatttcaa ccggaattc tcaaactga 
ctgtagcga tggaaaaag ccctaactg cagcatcgc 
ccaacaatt acgaaagca ttgtgtttg ctcccgtta 
acattgctg gagcactag cccttgtgc ttttgggct 
caaatggca agacttttg acgagattt cgaccatca 
tggggctag caactggcg ttgatattc acaataagt 
cccaactag tccatgaac aattcggga gattgttgg 
aaaaactgc agattactt cagggtttg atattgggc 
gtcaagtca acattgcga acgccgttt ttgtgcaaa 
ataattacc ctattcgac aaatttaca aaaacacgg 
ctgaaatgg tttacagga gcgaggttt tgaacgtgg 
attttgaaa cgaatccaa aatcggccg aacaaatta 
taaacgcat gggtgtctg aacggacca aaggcaaaa 
tcacccaaa ttctaaacg aaactcccg acagctcaa 
ccaaagtga ttttggcca gtgctatgt acttcaaag 
ccgagtggg agcgaccgt tttttgacg ggagcacga 
aaagacgtc ccttttata ccaacggtc ggggggcca 
aaagtgacg ttatggtgg aaatgatgt caaacggtg 
gcttgttcc cttactaca aagaccggg acttaaact 
gcgaaataa tcgggtttc cgtacaaag gcaaccaaa 
ccaccatgt acgttgtaa tccccacca attcggaca 
aaacgaaat taaaagaac tcgaagaca agttggact 
ataagcaag tcgagcgtt tggtcgcca atgtgaaat 
acacggggg ctatcgtca tatttccga aaatgcgca 
tcgacacaa cgattgatt tgaaaaaat cgctcaaaa 
atttaggcg tgcgttcgc tcttcagtc cagctgagg 
cgaacctag cgctgctgt cccccggaa aaggcgctc 
cgggcacga atccggtca tcggcaact cgatccaga 
acccaattt cggtcaaca cgaccggaa acgacgtca 
ttatattca accggaacg gagaagtgg tcaattgta 
cgcaaattt tcaacccga agagcaatg tcagtactt 
gcgagcagg tcgtgaccg attcctcaa ctccgcaga 
aggtcgtgt acaagaagt ttgggaata aagttgggc 
ggaggatcg acggggaga taactccgc gaattgccg 
aaactttgg ataatgtta gacagtatt taaatcagc 
agagcaacg cggagaggt ttgaaaatc cgggactgt 
atgctgata atgtcattc ataaggtgt atatggata 
ttactgaga gtgggactg aagcggccg cttccacgt 
cgattagtc tgtcgaggg atggaggaa gggtcacgg 
ttagggccg atgtgccct ttttgtttt tcatcatgc 
atgaggaga ccaagacca tgctgtttt gggggtcgg 
tgaacacgc ccacaccca atttcaaat aatccggcg 
tttgtgagc actttataa acattattt acacgattg 
tgatttcgt tttttacct ttgtaccta tttattttt 
atgtgtaag tgtgcatta atattaaag atttgtcca 
ctct

    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