Status
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Gene information
General information
TC009495 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_007422.5: 281296..285664
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
    		TC009495
    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_01564

    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: 10.0% (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

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: number 2nd lateral oviduct: - Number of animals showing the phenotype: 1

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

    egg chamber potentiallydegenerated - Number of animals showing the phenotype: 2

    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
    • >TC009495 RA
      MGDLRFDGR VVVVTGAGA GLGRAYALL FGSRGAKVV 
VNDLGGGRH GDGKSSSAA DAVVEEIKR NGGTAVADY 
NSVVDGEKV IKTALDNFG RVDVLINNA GILRDKSFA 
RISDQDWDL VHAVHLKGS FKTTQAAFP IFKKQGYGR 
IIMTSSNSG LYGNFGQAN YSAAKMGLV GLASTIAIE 
GAKNNIHCN VIVPTAASR LTEDILPPD LYAELKPEL 
IAPVVAYLC HESCTENGS IIESAAGWA GKCQIIRSN 
GSLLRTKIT DGVSVENVR DKWQKVTSM SNAEHLDSI 
QEATGALMT SLDSLRSGE VKDEEVDVY NFTQKDIIL 
YALGVGASL KNPNELKFI YENDEDFSA LPTFYIMPA 
MQAMFTSSK LESAIPGKT VSLAQILHG EQYIEFLGE 
VPKEGKLFS KNSIVEVLD KGSGAAIVQ NIETFDEQG 
NLLIRNQTV AFVVGAGNF GGSRTGTKA IPCQSKPPR 
VPDLSLTDK TTIDQAALY RLSGDTNPL HIDPNMAVV 
AGFKQPILH GLCTLGFSI RLLVRAYAG GDPSFVKAC 
KARFMKPVI PGQTLRVDF WREGSRIHF ETSVVETNT 
VVIGGAYVD LNSVKVMEP INNSVSAPA LESDAVFQF 
IIDQVKADP NKAKSIGGV FLYKITKNG KEAKQWTMD 
LKNAKVYEG APEGKPSTT LTIADEDFM LLAQGKLQP 
QAAFMKGKL KITGNIMLA QKLAPILKA NAKL
    CDS sequence
    • >TC009495 RA
      atgggtgat ctaagattt gatgggaga gtggtcgtg 
gtcacgggg gctggagct gggctaggc cgagcctat 
gccctttta tttggctct cggggggcc aaagttgta 
gtcaacgat ttagggggc ggtagacat ggtgatggt 
aaatcatca agtgcagca gacgctgtg gttgaagaa 
attaaaagg aatgggggc acagcagtt gccgattac 
aattcggtt gttgatgga gaaaaggtc attaaaacg 
gcgcttgat aatttcgga cgtgttgat gttttgatt 
aacaatgcg gggattttg agagacaag agttttgcg 
agaatatct gaccaggat tgggattta gttcatgcg 
gtgcatttg aaaggcagt tttaagacc actcaagct 
gcctttccc atttttaag aaacaaggg tatgggaga 
attataatg acttcttca aattctgga ctttacggt 
aattttggt caagcgaat tattccgct gctaaaatg 
ggtcttgtt ggtttggcc agtactatt gcaattgaa 
ggggcaaag aataatatt cattgcaat gtcattgtt 
ccaacagct gcgagtaga ctgactgag gatattttg 
ccacctgat ctctacgct gaactcaaa ccggagcta 
attgcacct gttgtggcc tacttatgt cacgaaagt 
tgcaccgaa aacggctct ataattgaa tcagcggct 
ggttgggcc ggaaagtgc caaataatt cgttcaaat 
ggtagtctt ttacgtacg aaaatcact gacggtgtt 
tcggttgaa aacgttcgt gataagtgg caaaaagtc 
acttcaatg tccaatgct gaacatttg gactcaatc 
caagaagct actggtgct ttgatgacg tcacttgac 
agtcttcgg tcaggtgaa gtcaaagac gaagaagtt 
gacgtttat aactttacc cagaaagat atcatcttg 
tatgcactt ggagtgggc gcgtctttg aaaaatcca 
aacgaactg aaatttatc tacgaaaac gacgaagat 
tttagtgcc ttaccgaca ttttacata atgccggca 
atgcaagca atgttcact tcttccaaa cttgagtca 
gcaattccc ggaaaaacg gtcagctta gctcagatt 
ttacacggc gagcaatat atcgagttt ttgggagaa 
gtccccaaa gaaggaaaa ttattttca aagaactca 
atcgttgaa gttttggat aagggatcg ggagctgca 
atcgttcaa aacattgaa acgtttgac gagcaagga 
aatttacta atccgcaac caaactgtc gcttttgtt 
gtgggtgct ggcaatttt ggtggttct agaactggt 
actaaagca atcccttgc caaagcaag ccaccccga 
gtacctgat ttgagtctc actgataaa actacaatt 
gatcaagct gccctctat cggctttcg ggtgataca 
aacccgctt catattgat ccgaatatg gcagtggtg 
gctggattt aaacaaccg attttgcac ggtttatgc 
actttggga ttttcaatc aggttgtta gtgagggct 
tatgctggt ggtgatcca agttttgtt aaagcttgc 
aaggccagg tttatgaaa ccggtgatt cccggacaa 
acgctcaga gttgatttt tggagggaa ggcagtaga 
attcatttc gagacaagt gttgtagag acaaatacg 
gtggtgata ggaggagcg tacgttgat ttgaattcg 
gtcaaagta atggaacca atcaacaat tccgtctcg 
gctcctgcc ttggaaagt gatgcagtt ttccagttt 
ataatcgac caagtgaaa gccgatccg aataaagcc 
aagtcaatt ggaggagta tttttgtat aaaatcacc 
aaaaatggc aaagaagcc aaacaatgg acaatggat 
ttgaaaaac gctaaagtt tacgagggg gcgcctgag 
ggtaaacca agtaccact ttgaccatt gccgatgaa 
gattttatg cttctggca caagggaag ttgcaacca 
caagccgct ttcatgaag ggaaaactc aaaattacc 
ggaaatatc atgctggcg cagaaattg gctccaatt 
ctcaaagcc aacgccaaa ctgtaa
    mRNA sequence
    • >TC009495 RA
      gttatgtaa tacagtgta ttttcttat ttttaattt 
aaattacaa ttcgatgaa ttgactatt cctgattag 
tacaataac taccacaat tctgtaaat ttacgaaaa 
ttagctaat tagtgtaat tgccaagtg aaacgtcaa 
aaagaaagt tgttcttct agaaaaaac acctcaagt 
agtggagaa ggggcaata ataaacttt ttatctagt 
ttatatttt cattaacgt tgtcaatac gcatgacaa 
gacactttt caataattt gctcaaagt tcagtcgac 
taaattagt gagcgttgt cgtgttgct aaaccataa 
tttcgccaa aaaatgggt gatctaaga tttgatggg 
agagtggtc gtggtcacg ggggctgga gctgggcta 
ggccgagcc tatgccctt ttatttggc tctcggggg 
gccaaagtt gtagtcaac gatttaggg ggcggtaga 
catggtgat ggtaaatca tcaagtgca gcagacgct 
gtggttgaa gaaattaaa aggaatggg ggcacagca 
gttgccgat tacaattcg gttgttgat ggagaaaag 
gtcattaaa acggcgctt gataatttc ggacgtgtt 
gatgttttg attaacaat gcggggatt ttgagagac 
aagagtttt gcgagaata tctgaccag gattgggat 
ttagttcat gcggtgcat ttgaaaggc agttttaag 
accactcaa gctgccttt cccattttt aagaaacaa 
gggtatggg agaattata atgacttct tcaaattct 
ggactttac ggtaatttt ggtcaagcg aattattcc 
gctgctaaa atgggtctt gttggtttg gccagtact 
attgcaatt gaaggggca aagaataat attcattgc 
aatgtcatt gttccaaca gctgcgagt agactgact 
gaggatatt ttgccacct gatctctac gctgaactc 
aaaccggag ctaattgca cctgttgtg gcctactta 
tgtcacgaa agttgcacc gaaaacggc tctataatt 
gaatcagcg gctggttgg gccggaaag tgccaaata 
attcgttca aatggtagt cttttacgt acgaaaatc 
actgacggt gtttcggtt gaaaacgtt cgtgataag 
tggcaaaaa gtcacttca atgtccaat gctgaacat 
ttggactca atccaagaa gctactggt gctttgatg 
acgtcactt gacagtctt cggtcaggt gaagtcaaa 
gacgaagaa gttgacgtt tataacttt acccagaaa 
gatatcatc ttgtatgca cttggagtg ggcgcgtct 
ttgaaaaat ccaaacgaa ctgaaattt atctacgaa 
aacgacgaa gattttagt gccttaccg acattttac 
ataatgccg gcaatgcaa gcaatgttc acttcttcc 
aaacttgag tcagcaatt cccggaaaa acggtcagc 
ttagctcag attttacac ggcgagcaa tatatcgag 
tttttggga gaagtcccc aaagaagga aaattattt 
tcaaagaac tcaatcgtt gaagttttg gataaggga 
tcgggagct gcaatcgtt caaaacatt gaaacgttt 
gacgagcaa ggaaattta ctaatccgc aaccaaact 
gtcgctttt gttgtgggt gctggcaat tttggtggt 
tctagaact ggtactaaa gcaatccct tgccaaagc 
aagccaccc cgagtacct gatttgagt ctcactgat 
aaaactaca attgatcaa gctgccctc tatcggctt 
tcgggtgat acaaacccg cttcatatt gatccgaat 
atggcagtg gtggctgga tttaaacaa ccgattttg 
cacggttta tgcactttg ggattttca atcaggttg 
ttagtgagg gcttatgct ggtggtgat ccaagtttt 
gttaaagct tgcaaggcc aggtttatg aaaccggtg 
attcccgga caaacgctc agagttgat ttttggagg 
gaaggcagt agaattcat ttcgagaca agtgttgta 
gagacaaat acggtggtg ataggagga gcgtacgtt 
gatttgaat tcggtcaaa gtaatggaa ccaatcaac 
aattccgtc tcggctcct gccttggaa agtgatgca 
gttttccag tttataatc gaccaagtg aaagccgat 
ccgaataaa gccaagtca attggagga gtatttttg 
tataaaatc accaaaaat ggcaaagaa gccaaacaa 
tggacaatg gatttgaaa aacgctaaa gtttacgag 
ggggcgcct gagggtaaa ccaagtacc actttgacc 
attgccgat gaagatttt atgcttctg gcacaaggg 
aagttgcaa ccacaagcc gctttcatg aagggaaaa 
ctcaaaatt accggaaat atcatgctg gcgcagaaa 
ttggctcca attctcaaa gccaacgcc aaactgtaa 
tttggtttt gtgtacgag gcacattcc gttttttgt 
gtcactggt ttatatttt ttatgtatg gtgaattgt 
gtataatta ttttaagtt tcaaaagtt ttgtattct 
gttattgtg gacttgttt aaatatatt tctttacca 
aacgagctt tttgtagat tttttcaag ccaaattgg 
ttaagcaag aatgaagtc tatcaagta gttggagaa 
ataaaatta acaacgttg ttaagagtt gttgctata 
gcaataagt ctaaccaat aaaactaca gttaaaat

    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