Status
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Gene information
General information
TC009562 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: 2579414..2583167
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
    		TC009562
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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_08640

    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: 30.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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
    • >TC009562 RA
      MDHRSPLES IFGIIGGLP QGHDKPVKH ALYNAVALL 
LLFLCCAAS WALFMILEP FVKPLIWAL LVGSVLHPL 
KRSLRDKFQ AWFKSLEVS HTPIVLGVM LIPINIVND 
LSDLIGDQI LKRIKFIIA VCVAVPLVL LVYNYTPKL 
VVCIFYKAY TYSYFVLGF CLDNASLPL FGLILIAYM 
SLTFLLWKP ENNTRFHYA SIGIWLLLS CCLAHLFGS 
FQMAAFIFL QVVFFGGFV SEVYDIHNE LNAEGHSIT 
FFESLSLAF HDKSLDIDE EHKEPANEA SEQKSEPLE 
DQDAKPKTS VKFNDGVGD GAPVKSPRR DPYSLDLFE 
ENKSNLLER TDSELSNAS VLITNQGIH LISKTPKKE 
LKRSLSQPQ FSLKNRSSF TSLNRRLSS VKSSTQSLI 
DTEKYESTF YLYSVLWAC IVMLFWKNI VLLPLLPLP 
ILLYCLKHA GKYFGVWNW LYDKLKIAI LAVSNWCCE 
RHDALVPVP IRGLYRVVH KINIFLKTS IRESIDTVA 
SCVVIFGLI IFVTCASVF IAIQIYAEA IMMVQMTGN 
VINQTVVHN PELRQLLPP AWDDTVDSI LDNAYQYGR 
EGISKAVKG MMTDVDSAK SEKLEKQVL ELWDRVYQS 
WMSTTDANG PKVTEDAVR VSWENFISD IQRSPEMFN 
LNGIVDFAK QNVGTLLSL LESVWSIVK GNIGLVLGS 
FSAFLSVIL GGGTAVLNF ILNGIVFLT TLFYLLSSS 
GDLYKPVEL MTKFSTSGR RFGHALEGA INGVFTASF 
KMAAFYGMW TWFIHNLFG VKIVYLPSA FATILGAVP 
FLGTYWACF PAVLDLWLA QDRGIEAIV FAIFQFLPT 
SIVDTTIYK EIKGGGHPY LTGLAIAGG IFCLGVEGA 
IVGPLLLCG LYVAIDLSS SLFKESPSE EPINLRLQL 
QDR
    CDS sequence
    • >TC009562 RA
      atggaccac cgttcgccc ttggagagc atcttcggc 
ataatcggg gggctgccg caggggcat gacaagccc 
gtcaagcat gccctttac aacgccgtg gcccttctg 
ctgctgttc ctgtgttgt gcggccagt tgggccctg 
ttcatgatc ctggagccg ttcgtgaag cccctgatc 
tgggccttg ctggtgggg tcggtgttg caccccctt 
aagcggtcg ctcagggac aagttccag gcctggttc 
aagagtctg gaggtgtct cacaccccc attgtgctg 
ggggtgatg ctcatccct atcaacata gtcaacgat 
ttgtcggat ttgatcggt gaccaaatt ttgaaacgg 
atcaagttc attatcgct gtttgtgtg gcggtgcct 
ttggtgctc ctggtctat aattacacg ccaaagttg 
gtggtttgc attttttat aaagcttac acttatagc 
tacttcgta ctgggtttt tgtctggat aatgcctct 
ctacctctg tttggccta attttaatc gcctacatg 
tctctgaca ttcctgctg tggaaaccc gaaaataat 
acgcgattt cattacgca tcaattgga atttggttg 
ttgttgtct tgttgtttg gctcattta ttcgggtcg 
ttccaaatg gctgcgttt attttttta caagttgtg 
tttttcggc ggatttgtg agcgaagtc tacgacatt 
cataacgaa ctaaacgct gaaggccac tcaattaca 
ttctttgag tcgctatct cttgcattc catgacaag 
tccttagat attgacgag gaacataaa gaaccagcg 
aacgaagcg agtgaacaa aagtcggaa cctctagag 
gatcaggat gccaagccg aagacttcg gtcaagttc 
aacgatggt gtgggcgac ggcgccccc gtaaaatcc 
ccccgaaga gacccctac tctctcgat ttattcgag 
gagaacaaa tcgaatctc ctcgagcga actgactcc 
gagttgagc aatgcgagt gtcctaata accaatcag 
gggattcac ctgatttca aaaaccccg aaaaaagaa 
ctgaaacgt tcgttgtcc caaccccag ttctcgctg 
aaaaatcgc tcgagtttc acgagtttg aatcggcga 
ttgagtagt gtgaaaagt tcaacgcaa agtctgata 
gataccgaa aagtacgag agtactttt tacctgtat 
tcggtactt tgggcttgc attgtgatg ttgttttgg 
aaaaatatc gtcttgttg ccgttgcta ccgcttccg 
attttgttg tactgtctc aagcatgcc gggaaatat 
ttcggtgtg tggaattgg ctttatgat aagttgaaa 
attgcgatc ttggctgtt agtaactgg tgttgtgag 
agacacgac gcccttgtt cctgtgcca attaggggc 
ctctatcga gtggtccac aaaataaat atttttctc 
aaaactagt attagagag agtattgat acggtggcg 
agttgtgtc gttattttt ggtcttatt attttcgtg 
acttgtgcg tcagttttt atagcaatt cagatctat 
gccgaggct attatgatg gttcaaatg accggaaat 
gtgatcaat cagactgtt gttcacaac ccagagttg 
agacagctt ttgcccccc gcttgggac gacactgtt 
gactccatt ttggacaat gcgtaccaa tacggccga 
gaaggaatc tccaaagcg gtcaaagga atgatgaca 
gacgtggac tcggcaaag tcggaaaaa ctggaaaag 
caagtgttg gaattatgg gatcgtgtc tatcagtcc 
tggatgtcc acaaccgac gcaaacggc cctaaagtg 
accgaagac gcggtccga gtgtcttgg gaaaatttc 
atcagtgac atacagaga tcaccagaa atgttcaac 
ttgaacgga atcgtggat tttgcgaaa caaaacgtg 
gggacactt ctgtccctt ctggaatca gtctggtcc 
atagttaag ggaaacatc gggctagtg cttggctca 
tttagcgcc tttttatcg gtgattttg ggcggcggc 
accgcggtg ctaaacttc atcttgaat gggattgtg 
ttcctcaca actttgttt tacctcctg agttcaagt 
ggcgacctt tacaaacca gtcgaactc atgacgaag 
ttttcgacc agtgggcgc cgctttggc cacgctttg 
gagggggct atcaacggg gtctttacc gcctcgttc 
aaaatggca gcgttttac ggcatgtgg acgtggttc 
atccacaat ttattcggc gtgaaaatc gtctatctt 
ccgtcagct tttgcgaca attctgggg gctgtccct 
tttttgggg acctactgg gcgtgtttt cccgccgtt 
ttggacttg tggttggcc caagaccgc gggattgag 
gcaattgtg tttgccatt ttccagttt ttgccaact 
tcgatcgtt gatactacc atttataag gaaatcaaa 
gggggcggt cacccgtat ttgaccggt ttggccatc 
gctgggggg attttctgt ctcggggtc gagggggct 
atcgtgggg ccccttcta ctgtgcggg ctgtacgtc 
gcgattgac ttgtcttct agtcttttt aaggagtct 
ccctcagag gagccgatc aatctcagg ttgcagctg 
caagaccga taa
    mRNA sequence
    • >TC009562 RA
      gtgaaattt tcaaattta ttaattttt atgaataac 
aagatctta tgaaactat ttagacaag tgctctgga 
agcattaca tcgtcttac actaattgt ggttgactt 
tctttaaaa atcgggcat agtttgacc tggtttgcc 
actgacagt tgacaaata caaacagcg tgaccttag 
ccactcacg tgtcccttc tgtcagcga tgtcaacat 
tgctctaaa attaaaaat gattcgata aatttaatc 
agttgaatt aatatcgcg atggaccac cgttcgccc 
ttggagagc atcttcggc ataatcggg gggctgccg 
caggggcat gacaagccc gtcaagcat gccctttac 
aacgccgtg gcccttctg ctgctgttc ctgtgttgt 
gcggccagt tgggccctg ttcatgatc ctggagccg 
ttcgtgaag cccctgatc tgggccttg ctggtgggg 
tcggtgttg caccccctt aagcggtcg ctcagggac 
aagttccag gcctggttc aagagtctg gaggtgtct 
cacaccccc attgtgctg ggggtgatg ctcatccct 
atcaacata gtcaacgat ttgtcggat ttgatcggt 
gaccaaatt ttgaaacgg atcaagttc attatcgct 
gtttgtgtg gcggtgcct ttggtgctc ctggtctat 
aattacacg ccaaagttg gtggtttgc attttttat 
aaagcttac acttatagc tacttcgta ctgggtttt 
tgtctggat aatgcctct ctacctctg tttggccta 
attttaatc gcctacatg tctctgaca ttcctgctg 
tggaaaccc gaaaataat acgcgattt cattacgca 
tcaattgga atttggttg ttgttgtct tgttgtttg 
gctcattta ttcgggtcg ttccaaatg gctgcgttt 
attttttta caagttgtg tttttcggc ggatttgtg 
agcgaagtc tacgacatt cataacgaa ctaaacgct 
gaaggccac tcaattaca ttctttgag tcgctatct 
cttgcattc catgacaag tccttagat attgacgag 
gaacataaa gaaccagcg aacgaagcg agtgaacaa 
aagtcggaa cctctagag gatcaggat gccaagccg 
aagacttcg gtcaagttc aacgatggt gtgggcgac 
ggcgccccc gtaaaatcc ccccgaaga gacccctac 
tctctcgat ttattcgag gagaacaaa tcgaatctc 
ctcgagcga actgactcc gagttgagc aatgcgagt 
gtcctaata accaatcag gggattcac ctgatttca 
aaaaccccg aaaaaagaa ctgaaacgt tcgttgtcc 
caaccccag ttctcgctg aaaaatcgc tcgagtttc 
acgagtttg aatcggcga ttgagtagt gtgaaaagt 
tcaacgcaa agtctgata gataccgaa aagtacgag 
agtactttt tacctgtat tcggtactt tgggcttgc 
attgtgatg ttgttttgg aaaaatatc gtcttgttg 
ccgttgcta ccgcttccg attttgttg tactgtctc 
aagcatgcc gggaaatat ttcggtgtg tggaattgg 
ctttatgat aagttgaaa attgcgatc ttggctgtt 
agtaactgg tgttgtgag agacacgac gcccttgtt 
cctgtgcca attaggggc ctctatcga gtggtccac 
aaaataaat atttttctc aaaactagt attagagag 
agtattgat acggtggcg agttgtgtc gttattttt 
ggtcttatt attttcgtg acttgtgcg tcagttttt 
atagcaatt cagatctat gccgaggct attatgatg 
gttcaaatg accggaaat gtgatcaat cagactgtt 
gttcacaac ccagagttg agacagctt ttgcccccc 
gcttgggac gacactgtt gactccatt ttggacaat 
gcgtaccaa tacggccga gaaggaatc tccaaagcg 
gtcaaagga atgatgaca gacgtggac tcggcaaag 
tcggaaaaa ctggaaaag caagtgttg gaattatgg 
gatcgtgtc tatcagtcc tggatgtcc acaaccgac 
gcaaacggc cctaaagtg accgaagac gcggtccga 
gtgtcttgg gaaaatttc atcagtgac atacagaga 
tcaccagaa atgttcaac ttgaacgga atcgtggat 
tttgcgaaa caaaacgtg gggacactt ctgtccctt 
ctggaatca gtctggtcc atagttaag ggaaacatc 
gggctagtg cttggctca tttagcgcc tttttatcg 
gtgattttg ggcggcggc accgcggtg ctaaacttc 
atcttgaat gggattgtg ttcctcaca actttgttt 
tacctcctg agttcaagt ggcgacctt tacaaacca 
gtcgaactc atgacgaag ttttcgacc agtgggcgc 
cgctttggc cacgctttg gagggggct atcaacggg 
gtctttacc gcctcgttc aaaatggca gcgttttac 
ggcatgtgg acgtggttc atccacaat ttattcggc 
gtgaaaatc gtctatctt ccgtcagct tttgcgaca 
attctgggg gctgtccct tttttgggg acctactgg 
gcgtgtttt cccgccgtt ttggacttg tggttggcc 
caagaccgc gggattgag gcaattgtg tttgccatt 
ttccagttt ttgccaact tcgatcgtt gatactacc 
atttataag gaaatcaaa gggggcggt cacccgtat 
ttgaccggt ttggccatc gctgggggg attttctgt 
ctcggggtc gagggggct atcgtgggg ccccttcta 
ctgtgcggg ctgtacgtc gcgattgac ttgtcttct 
agtcttttt aaggagtct ccctcagag gagccgatc 
aatctcagg ttgcagctg caagaccga taattgttc 
cagaagttt ataatgctt aatgttatt gtgcaccga 
gggctttaa aacacgtta cctaaccaa gatttttac 
agatattta ttgatgttt aagattgtt agatgtttt 
taagaaata aacgaaaat caaaaga

    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