Status
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Gene information
General information
TC003223 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_007418.3: 65896..69042
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
    		TC003223
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03521

    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

    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection

    remarks: later than schedule,
    Adult morphology
    remarks: later than schedule,
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003223 RA
      MARRTPADA KNGSSRPVS FYDNCLENG 
NNSESLVRE TQFDSSPTQ AHCLVTTVP 
QNIAAQNIA SKHTPNRNS LRHSRMIAM 
NKNGRGMKK NYFVYAVKV LSVTLSTIG 
AISAFTASA FAVIHLVAL YSMTCTPPG 
QLDTTCMCI KNDTLPTQS YHYVDLSCL 
EVDNILTIL IIFSCAVNL IVGVMEVWY 
VYLHWASRY VYTYSKVRT ENDQPTVLQ 
NPR
    • >TC003223 RB
      MARRTPADA KNGSSRPVS FYDNCLENG NNSESLVRE 
TQFDSSPTQ AHCLVTTVP QNIAAQNIA SKHTPNRNS 
LRHSRMIAM NKNGRVPRK YLPAIFRYH KLAKALLGL 
IILLGLSIC FLSLWLLIW TPNIRQRDN PHWSGIPVL 
LSGMKKNYF VYAVKVLSV TLSTIGAIS AFTASAFAV 
IHLVALYSM TCTPPGQLD TTCMCIKND TLPTQSYHY 
VDLSCLEVD NILTILIIF SCAVNLIVG VMEVWYVYL 
HWASRYVYT YSKVRTEND QPTVLQNPR
    CDS sequence
    • >TC003223 RA
      atggcccgg agaacaccc gcggatgca aaaaacgga 
agtagcaga ccagtcagt ttttatgac aattgcctg 
gaaaacgga aataattcc gaaagtctt gtcagagag 
acacaattt gatagtagt ccaacgcaa gcacactgt 
ttggtgact acagtacct caaaatatt gccgctcag 
aatatcgca agtaagcat acgcccaat aggaacagt 
ctgaggcat agtcggatg attgcgatg aataaaaat 
ggacgaggc atgaaaaaa aattacttt gtttacgcc 
gtcaaggta ttaagtgtg actttgagc acgattggt 
gcgatttcg gcattcaca gcttccgct ttcgccgtt 
attcactta gtggcgctg tatagcatg acctgtact 
ccccccggc caactcgac accacttgc atgtgcatt 
aaaaacgat actctcccc actcaaagt taccactat 
gtcgacttg agttgtctc gaagttgat aatattctc 
acaatactt ataattttc tcgtgcgct gtgaatctc 
atcgttggt gtgatggaa gtgtggtac gtttatcta 
cattgggcc agtagatat gtctatact tattccaaa 
gtaaggacg gaaaatgac caaccgact gttctacaa 
aaccccaga taa
    • >TC003223 RB
      atggcccgg agaacaccc gcggatgca aaaaacgga 
agtagcaga ccagtcagt ttttatgac aattgcctg 
gaaaacgga aataattcc gaaagtctt gtcagagag 
acacaattt gatagtagt ccaacgcaa gcacactgt 
ttggtgact acagtacct caaaatatt gccgctcag 
aatatcgca agtaagcat acgcccaat aggaacagt 
ctgaggcat agtcggatg attgcgatg aataaaaat 
ggacgagtg cctcgaaaa tacttacct gcaatattc 
cgatatcac aaattagcc aaagctttg ctcggccta 
ataatactc ttaggttta tcaatatgt tttttgtct 
ctttggcta ctaatatgg accccaaac atccgacaa 
cgagacaat cctcactgg agcggaata ccagtacta 
ctatcaggc atgaaaaaa aattacttt gtttacgcc 
gtcaaggta ttaagtgtg actttgagc acgattggt 
gcgatttcg gcattcaca gcttccgct ttcgccgtt 
attcactta gtggcgctg tatagcatg acctgtact 
ccccccggc caactcgac accacttgc atgtgcatt 
aaaaacgat actctcccc actcaaagt taccactat 
gtcgacttg agttgtctc gaagttgat aatattctc 
acaatactt ataattttc tcgtgcgct gtgaatctc 
atcgttggt gtgatggaa gtgtggtac gtttatcta 
cattgggcc agtagatat gtctatact tattccaaa 
gtaaggacg gaaaatgac caaccgact gttctacaa 
aaccccaga taa
    mRNA sequence
    • >TC003223 RA
      tcggaatca atttattcc ttgcacaga tttgacaga 
ttgtttctt tggtgattt actgcgata ttttgagta 
tttgagtac ttccccaac gtttgagcg ccactggta 
aatcccact tcagcagca atttaaaaa aggtgggca 
aggtggagg tgaacgagc gagcacatg gccatgcca 
tagaaatgt aaatttttc aatacagta gttgtcttg 
tgcttgcgt ttgaatgac aaacaacgg agttgcttt 
ctttttcgt gcaagtttg tcaagcgat tcaaagcgg 
atgtgcgcc actaaacac gcaaaagaa ctgcgaaac 
gatgaataa tcgacgatt tcgcgctgg aaaagtggt 
ttttgtctt gcttagaga agatttgtg acgttagga 
agcacgctt ttatgacca tcgtcccca cataaaagc 
tccgttcat agagaaatt acattttct gcaccataa 
aacaagttg cggcagttt attattgta gtcggcgta 
aaataaact gcaagtttt atttttgaa tttcttcca 
gaattcaat gtttgcaga agccgtcaa aaatggccc 
ggagaacac ccgcggatg caaaaaacg gaagtagca 
gaccagtca gtttttatg acaattgcc tggaaaacg 
gaaataatt ccgaaagtc ttgtcagag agacacaat 
ttgatagta gtccaacgc aagcacact gtttggtga 
ctacagtac ctcaaaata ttgccgctc agaatatcg 
caagtaagc atacgccca ataggaaca gtctgaggc 
atagtcgga tgattgcga tgaataaaa atggacgag 
gcatgaaaa aaaattact ttgtttacg ccgtcaagg 
tattaagtg tgactttga gcacgattg gtgcgattt 
cggcattca cagcttccg ctttcgccg ttattcact 
tagtggcgc tgtatagca tgacctgta ctccccccg 
gccaactcg acaccactt gcatgtgca ttaaaaacg 
atactctcc ccactcaaa gttaccact atgtcgact 
tgagttgtc tcgaagttg ataatattc tcacaatac 
ttataattt tctcgtgcg ctgtgaatc tcatcgttg 
gtgtgatgg aagtgtggt acgtttatc tacattggg 
ccagtagat atgtctata cttattcca aagtaagga 
cggaaaatg accaaccga ctgttctac aaaacccca 
gataattct gtacctgtg tgttgtccc aaagattcg 
tttgtatat ttgttggta ggacttctt attgttaaa 
taaaagagt tattacata
    • >TC003223 RB
      tcggaatca atttattcc ttgcacaga tttgacaga 
ttgtttctt tggtgattt actgcgata ttttgagta 
tttgagtac ttccccaac gtttgagcg ccactggta 
aatcccact tcagcagca atttaaaaa aggtgggca 
aggtggagg tgaacgagc gagcacatg gccatgcca 
tagaaatgt aaatttttc aatacagta gttgtcttg 
tgcttgcgt ttgaatgac aaacaacgg agttgcttt 
ctttttcgt gcaagtttg tcaagcgat tcaaagcgg 
atgtgcgcc actaaacac gcaaaagaa ctgcgaaac 
gatgaataa tcgacgatt tcgcgctgg aaaagtggt 
ttttgtctt gcttagaga agatttgtg acgttagga 
agcacgctt ttatgacca tcgtcccca cataaaagc 
tccgttcat agagaaatt acattttct gcaccataa 
aacaagttg cggcagttt attattgta gtcggcgta 
aaataaact gcaagtttt atttttgaa tttcttcca 
gaattcaat gtttgcaga agccgtcaa aaatggccc 
ggagaacac ccgcggatg caaaaaacg gaagtagca 
gaccagtca gtttttatg acaattgcc tggaaaacg 
gaaataatt ccgaaagtc ttgtcagag agacacaat 
ttgatagta gtccaacgc aagcacact gtttggtga 
ctacagtac ctcaaaata ttgccgctc agaatatcg 
caagtaagc atacgccca ataggaaca gtctgaggc 
atagtcgga tgattgcga tgaataaaa atggacgag 
tgcctcgaa aatacttac ctgcaatat tccgatatc 
acaaattag ccaaagctt tgctcggcc taataatac 
tcttaggtt tatcaatat gttttttgt ctctttggc 
tactaatat ggaccccaa acatccgac aacgagaca 
atcctcact ggagcggaa taccagtac tactatcag 
gcatgaaaa aaaattact ttgtttacg ccgtcaagg 
tattaagtg tgactttga gcacgattg gtgcgattt 
cggcattca cagcttccg ctttcgccg ttattcact 
tagtggcgc tgtatagca tgacctgta ctccccccg 
gccaactcg acaccactt gcatgtgca ttaaaaacg 
atactctcc ccactcaaa gttaccact atgtcgact 
tgagttgtc tcgaagttg ataatattc tcacaatac 
ttataattt tctcgtgcg ctgtgaatc tcatcgttg 
gtgtgatgg aagtgtggt acgtttatc tacattggg 
ccagtagat atgtctata cttattcca aagtaagga 
cggaaaatg accaaccga ctgttctac aaaacccca 
gataattct gtacctgtg tgttgtccc aaagattcg 
tttgtatat ttgttggta ggacttctt attgttaaa 
taaaagagt tattacata

    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