Status
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Gene information
General information
TC007219 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: 7400396..7407222
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
    		TC007219
    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
    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_01149

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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): more than 80%
    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - 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
    • >TC007219 RA
      MATLKFKQP SPYSVKAPS SPDEDIKYK KYQEHLKLD 
HSGHSQFGF ALFGVGRAG TIHLAFLVK EPRVKLLYV 
VDDDKPKWE KLKKYWNLE TVRFLTNAE SKLVYEDPN 
VRAVVVASP TYTHEEIVT KALNHDKAV FCEKPVAEE 
HDKIKALCN LAKKVKQPL FCAFNRRFD PSFAAIRDR 
VRRGEVGKV STVKVCSRD SPLPSIEYL KISGGIFHD 
CAVHDIDMT LYILGEYPT KVMVMASAN IPEIAQIND 
YDTVGIMLS FDSGAIGLI DLSRHSVYG YDQRVEVFG 
QKGMIKAEN QLPIHNVET YTERSVSKA PIAYSFPSR 
YADGYEMEM RHFLDVLEG KTTVCVDSN DILAVTRIA 
SACEEAVKT GKCVELKWR DDEKPKLV
    CDS sequence
    • >TC007219 RA
      atggcgact ttgaagttc aagcagccg tcaccgtat 
tcggttaaa gctccttcg tctccagat gaagatatt 
aaatacaaa aaatatcag gaacatttg aaattagat 
cactctggc cattcacag ttcggtttc gctctattt 
ggtgttggt agagctgga actatacat ttagccttc 
ttggtgaaa gaacctaga gttaaattg ctctatgta 
gtagacgat gataagcca aagtgggag aaactgaag 
aaatattgg aatctggaa accgtccgc tttttgaca 
aatgcagaa tccaaactt gtttacgaa gaccccaat 
gtccgagct gttgtggtt gcctcacca acatacact 
cacgaggag atagtaaca aaagctcta aaccatgac 
aaagcagtt ttttgtgag aaacctgta gctgaggaa 
cacgataaa atcaaagct ttgtgcaat ttagcaaag 
aaagtgaag cagccgcta ttttgtgca tttaaccgg 
cgttttgat ccttccttt gccgctatt agagacagg 
gttcgcagg ggcgaagtc ggtaaagtt tcgaccgtg 
aaagtctgc agtcgcgac tcccctttg ccttccatc 
gaatattta aaaatatcc ggtggcatt tttcacgac 
tgcgccgtt cacgacatc gacatgact ttgtacatc 
ttgggggaa tacccgacc aaagttatg gtcatggca 
agcgccaac ataccagaa attgcccaa atcaatgat 
tatgatacc gtcggaatc atgctatcg ttcgacagt 
ggagctatc gggcttata gatctgagc cgccacagc 
gtttacggt tatgatcaa agagtggaa gtctttgga 
cagaaagga atgattaaa gctgaaaat cagctgcca 
attcacaac gtggaaacc tacacggaa aggagcgtc 
agcaaggcc cctatcgct tactccttt ccgtcgcgt 
tatgccgat ggttatgag atggaaatg agacatttc 
ttggatgtt ttggaaggt aaaacgacg gtgtgcgtt 
gacagtaat gatatcctc gcagtgact cgtatagca 
tcagcttgc gaggaggcc gtaaagacg ggaaaatgt 
gtggaactt aaatggcga gatgatgag aaaccgaaa 
ttagtttga
    mRNA sequence
    • >TC007219 RA
      atttaattt cagcgtaca agtttaagc tcatgctat 
taatcggtt cggcgccca aatgttgtg ttagtttcc 
taaaatggc gactttgaa gttcaagca gccgtcacc 
gtattcggt taaagctcc ttcgtctcc agatgaaga 
tattaaata caaaaaata tcaggaaca tttgaaatt 
agatcactc tggccattc acagttcgg tttcgctct 
atttggtgt tggtagagc tggaactat acatttagc 
cttcttggt gaaagaacc tagagttaa attgctcta 
tgtagtaga cgatgataa gccaaagtg ggagaaact 
gaagaaata ttggaatct ggaaaccgt ccgcttttt 
gacaaatgc agaatccaa acttgttta cgaagaccc 
caatgtccg agctgttgt ggttgcctc accaacata 
cactcacga ggagatagt aacaaaagc tctaaacca 
tgacaaagc agttttttg tgagaaacc tgtagctga 
ggaacacga taaaatcaa agctttgtg caatttagc 
aaagaaagt gaagcagcc gctattttg tgcatttaa 
ccggcgttt tgatccttc ctttgccgc tattagaga 
cagggttcg caggggcga agtcggtaa agtttcgac 
cgtgaaagt ctgcagtcg cgactcccc tttgccttc 
catcgaata tttaaaaat atccggtgg catttttca 
cgactgcgc cgttcacga catcgacat gactttgta 
catcttggg ggaataccc gaccaaagt tatggtcat 
ggcaagcgc caacatacc agaaattgc ccaaatcaa 
tgattatga taccgtcgg aatcatgct atcgttcga 
cagtggagc tatcgggct tatagatct gagccgcca 
cagcgttta cggttatga tcaaagagt ggaagtctt 
tggacagaa aggaatgat taaagctga aaatcagct 
gccaattca caacgtgga aacctacac ggaaaggag 
cgtcagcaa ggcccctat cgcttactc ctttccgtc 
gcgttatgc cgatggtta tgagatgga aatgagaca 
tttcttgga tgttttgga aggtaaaac gacggtgtg 
cgttgacag taatgatat cctcgcagt gactcgtat 
agcatcagc ttgcgagga ggccgtaaa gacgggaaa 
atgtgtgga acttaaatg gcgagatga tgagaaacc 
gaaattagt ttgacggtg ttaagcgtt gtaaaaact 
cccaataaa tctttcgcg ctttatatt ttgttttat 
atcagcgtt catattttt cataatccc tggagatgt 
aaaaagcgg ctgcgtaat accatttta attaaaact 
tgctcttta ccgacaagc gttcctatt tcatcgcag 
ctacttata cggttcgtg catttttca gcgaccatt 
attccgagt attacaaaa ttatgagcg aacaaacat 
ccatcatca acagcatcc aatctgctg ccaagtgtc 
acagccgat cgatctgca cacgtttca ttttggccg 
tttttacgc tgattgaat cctcgttta ccctcgaaa 
actcattaa aaaacttgt tccagcgtg catgtagag 
accggatta ttttgtgat atgaatttg tattggatt 
atctccttg ggggttgcc aatctcggg gacataatt 
cactgcaaa ttcctattt gtgtcgatg tttaactcg 
attcggcga tggaaattt agcgcttga cccaagagt 
cttggcgag agatttcag ctccaattt atggaaacg 
actgtttta aaagccttt ctaaatatt cacgctttc 
gtgtgctaa acaacggaa cgaaataat tgcaaatac 
tcgta

    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