Status
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Gene information
General information
TC013196 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_007420.3: 12439625..12447492
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
    		TC013196
    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
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08383

    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)

    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: < 50
    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
    • >TC013196 RA
      MLRQVWRSH KYLWTELSV SCRMLWWLL LGLCSTSGV 
ALCPSMCQC GVTSKGRRK VQCVEGGMT EAIPTHEMD 
AGTEVLEIS APAGDWNAL SISPTFQRF KRLEEVHIR 
RSGLTQVGM HPFWGVPSL KLLDLTVNN ISGVADHNF 
RGLVNLVEL NLDDNRITS LQSGVFKHL TELRILTLQ 
RNLLDELVP RLFLKLGKL HMLKLSGNK FDELNPEVF 
KDIPELRVL ECRECGLRR INTQIYHLL PYLSHLDLG 
DNQMQFIAS DEFRDLKRL HSLKLDGNQ LPVVLEHTF 
VRQQELKYL CLARNRLAK ITNTAFVNL SSLADLDIG 
YNKLDRLEM QALQPVADT LERLVISGN AFGPNVIRN 
ILNTVYNVR ELGVAHMNL RHIPKGFFP ERVRKLNVS 
ANNLTELES GSLPRQLLE LDLSHNDLQ RLSESLILK 
LEDLHAVSL GSNPWSCRV CDLSSIIFR LNRTNLFRN 
VTCAAPKPL QGREISALH LEDLPGCKP PSQDAAKTG 
RLGLVVGFA SLVSFSLVC VTFAVCSCM RRRARDAVQ 
EQKRLAELQ ENALDRPIA IFAKGEISF KFPLDLTER 
KVEVSTIDE IKKDTQSLP NGTGI
    CDS sequence
    • >TC013196 RA
      atgttgcgt caggtgtgg cgttcccac aaatatttg 
tggactgaa ttgtctgtt tcctgcagg atgctgtgg 
tggctgttg ctggggctg tgttccacc agcggcgtc 
gccctctgc ccgtccatg tgccagtgc ggcgtgacg 
tccaagggc cggcggaag gtgcagtgc gtcgagggc 
ggcatgacg gaggccatc cccacgcac gagatggac 
gccggcacc gaggtgctg gagatctcg gcgccggcc 
ggcgactgg aacgcgctg agcatctcg ccgacgttc 
cagcgcttc aagcgcctg gaggaggtg cacatccgg 
cgctccggc ctcacccag gtcggcatg caccccttc 
tggggcgtg ccctcgctc aaactgctc gatctgacg 
gtgaataat atcagtggt gtggccgat cataacttc 
cgcggcttg gtgaatcta gtggagttg aatttggac 
gataacaga ataacaagt ttgcaaagc ggggttttt 
aagcatttg accgagcta aggatattg actctgcag 
aggaatttg ctcgacgaa ttagtgcct cggctgttt 
ttaaaactc ggaaaactt cacatgctc aaacttagc 
gggaataaa ttcgatgaa cttaatcca gaagtgttc 
aaggatatt ccagaactg cgtgtcctg gaatgtcgc 
gagtgcggc ctgcgccgc atcaacacc caaatctac 
cacttgctg ccttattta tcccacctg gatctgggc 
gacaaccag atgcagttc atcgcctcg gacgagttc 
cgcgacttg aagcgtctc cacagcctg aagctggac 
ggcaaccag ctgccggtg gtgctcgag cacaccttc 
gtgcgccag caagaactc aagtatctg tgtttggcg 
cgcaatcgc ttggccaaa atcaccaac acggccttc 
gtgaacctc tcaagcctc gccgacctg gacatcggc 
tacaacaag ctcgaccgg ctggagatg caggccctc 
cagcccgtc gccgacacc ctcgagcgc ctcgtaatc 
agcggcaac gcgttcggt cctaatgtg atacgcaac 
attttgaac acagtttac aacgtgcgc gagctcggg 
gtggcccac atgaacctg cgccacatc ccgaagggt 
tttttcccg gagcgcgtc cggaaattg aacgtctcg 
gcgaataat ctgaccgag ctcgagtcc gggagcctc 
ccccggcag ctgctcgag ctcgacttg agtcacaac 
gacttgcag cgcctctcc gagagcctc attttgaag 
ctggaggat ttgcatgca gtgtctctc ggctctaat 
ccctggtcg tgccgagtg tgcgattta agctccata 
attttccgc ctaaaccgc actaatctc ttccggaac 
gtcacgtgt gccgcgccg aagccgctc caagggcgc 
gagatctcc gcgctgcac ctggaggac ctgcccggg 
tgcaagccg ccgtcgcag gacgccgcc aagacgggg 
aggctgggc ctggtggtg gggttcgcg agtttggtc 
tcgttttcg ctggtttgt gtgacgttc gcagtgtgc 
tcgtgtatg agaaggcgg gctagggac gcggtccag 
gagcagaag cgactcgcg gagctgcag gagaacgcg 
ctggatcga ccgattgcg attttcgcc aagggcgag 
atcagcttt aagtttccg ctggatttg accgagagg 
aaagtggaa gtctcgacg atcgacgag atcaagaaa 
gatacacag agtttgccg aacggaacg ggaatttga
    mRNA sequence
    • >TC013196 RA
      tttcttgtt tatttgtta ataataatg tcaggttgg 
gcagattat gttgcgtca ggtgtggcg ttcccacaa 
atatttgtg gactgaatt gtctgtttc ctgcaggat 
gctgtggtg gctgttgct ggggctgtg ttccaccag 
cggcgtcgc cctctgccc gtccatgtg ccagtgcgg 
cgtgacgtc caagggccg gcggaaggt gcagtgcgt 
cgagggcgg catgacgga ggccatccc cacgcacga 
gatggacgc cggcaccga ggtgctgga gatctcggc 
gccggccgg cgactggaa cgcgctgag catctcgcc 
gacgttcca gcgcttcaa gcgcctgga ggaggtgca 
catccggcg ctccggcct cacccaggt cggcatgca 
ccccttctg gggcgtgcc ctcgctcaa actgctcga 
tctgacggt gaataatat cagtggtgt ggccgatca 
taacttccg cggcttggt gaatctagt ggagttgaa 
tttggacga taacagaat aacaagttt gcaaagcgg 
ggtttttaa gcatttgac cgagctaag gatattgac 
tctgcagag gaatttgct cgacgaatt agtgcctcg 
gctgttttt aaaactcgg aaaacttca catgctcaa 
acttagcgg gaataaatt cgatgaact taatccaga 
agtgttcaa ggatattcc agaactgcg tgtcctgga 
atgtcgcga gtgcggcct gcgccgcat caacaccca 
aatctacca cttgctgcc ttatttatc ccacctgga 
tctgggcga caaccagat gcagttcat cgcctcgga 
cgagttccg cgacttgaa gcgtctcca cagcctgaa 
gctggacgg caaccagct gccggtggt gctcgagca 
caccttcgt gcgccagca agaactcaa gtatctgtg 
tttggcgcg caatcgctt ggccaaaat caccaacac 
ggccttcgt gaacctctc aagcctcgc cgacctgga 
catcggcta caacaagct cgaccggct ggagatgca 
ggccctcca gcccgtcgc cgacaccct cgagcgcct 
cgtaatcag cggcaacgc gttcggtcc taatgtgat 
acgcaacat tttgaacac agtttacaa cgtgcgcga 
gctcggggt ggcccacat gaacctgcg ccacatccc 
gaagggttt tttcccgga gcgcgtccg gaaattgaa 
cgtctcggc gaataatct gaccgagct cgagtccgg 
gagcctccc ccggcagct gctcgagct cgacttgag 
tcacaacga cttgcagcg cctctccga gagcctcat 
tttgaagct ggaggattt gcatgcagt gtctctcgg 
ctctaatcc ctggtcgtg ccgagtgtg cgatttaag 
ctccataat tttccgcct aaaccgcac taatctctt 
ccggaacgt cacgtgtgc cgcgccgaa gccgctcca 
agggcgcga gatctccgc gctgcacct ggaggacct 
gcccgggtg caagccgcc gtcgcagga cgccgccaa 
gacggggag gctgggcct ggtggtggg gttcgcgag 
tttggtctc gttttcgct ggtttgtgt gacgttcgc 
agtgtgctc gtgtatgag aaggcgggc tagggacgc 
ggtccagga gcagaagcg actcgcgga gctgcagga 
gaacgcgct ggatcgacc gattgcgat tttcgccaa 
gggcgagat cagctttaa gtttccgct ggatttgac 
cgagaggaa agtggaagt ctcgacgat cgacgagat 
caagaaaga tacacagag tttgccgaa cggaacggg 
aatttgaag cttgatggg agggatggg gtgttgtct 
gtgggaacg cggggaaaa catatcgag aggtgctca 
catcgagac catatcaaa cggatatag tgaattata 
gtgcctgag ggaggggcg gggtaatga gcccgaagg 
attgttgca atcactgat aaacgatac ggtttgtac 
caaattttt ggcaccctg tagaatggc ccaaataaa 
atttaaatg cagtt

    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