Status
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Gene information
General information
TC001622 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_007416.3: 1350358..1354869
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
    		TC001622
    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 *
    {{ blurIdResult }}
    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_00272

    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

    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (41 dpi)
    Days post injection

    Pupal morphology
    oblique dorsal thoracic muscles anterior shortened - Number of animals showing the phenotype: 3

    oblique dorsal thoracic muscles partially not present - Number of animals showing the phenotype: 2

    Adult morphology
    wings orientation irregular - Number of animals showing the phenotype: 3 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC001622 RA
      MPVRKAIHA GSWYTDSGP ELSRQLEYW LHQADLIHG 
PARAIIAPH AGYQYCGAC GGHAYRQVS PVVVRRIFI 
LGPSHHVRL SGCALSTAR KYKTPLYDL HVDSQVNGE 
LEMTGQFEW MDLDTDENE HSIEMHLPY IAKVMENYK 
HQFTIVPIL VGSLSPERE ACYGRILSS YLGDPQNLF 
IISSDFCHW GHRFRYTYY DRSYGSIYQ SIEELDRLG 
MNIIENLNP TDFTNYLKK FGNTICGRH PIGILLQAV 
QELLRNDSR RNANLKFLK YAQSSQCRN MNDSSVSYA 
SAALVFE
    CDS sequence
    • >TC001622 RA
      atgcctgtt agaaaagcc atacatgct ggtagttgg 
tacacagac tcaggtccc gaattatcg cggcagctc 
gaatattgg ctgcaccaa gccgactta atccacggt 
cctgctcgg gctataatc gctccacat gcgggctat 
cagtactgc ggcgcttgc ggggggcac gcgtacaga 
caagtcagt cctgtcgtg gtaaggcgt atatttatt 
ttaggacct tctcaccat gtccgttta tcaggatgt 
gccttgtcc acagcgcga aaatacaag acccccctt 
tacgactta catgtagat tctcaagta aacggcgaa 
ttagaaatg acgggtcag ttcgaatgg atggactta 
gatactgac gaaaatgag cacagtatt gaaatgcat 
ttaccctac atagcgaaa gttatggaa aattacaaa 
caccaattc accatagta cctattctt gtgggttcg 
ctcagtccc gagcgggag gcttgctac ggtcggata 
ctatcgagc tacctagga gaccctcaa aaccttttc 
ataatatcg tcagatttc tgccactgg ggccaccgg 
tttcgctac acgtattac gaccgttct tacggcagc 
atctaccaa tcgatagaa gaactcgat cgtttgggg 
atgaacata atagaaaat ctaaatccg accgacttc 
acgaattat ttaaagaaa ttcggaaac acgatttgt 
ggtagacat ccgatcggg atactactg caggccgtg 
caggagctc ctgcggaac gacagtcgg agaaacgcg 
aatttgaaa ttcctgaaa tatgctcag tcaagtcag 
tgtcgtaat atgaatgac tcgtcagtg agttacgca 
tcggctgcc cttgtgttc gagtag
    mRNA sequence
    • >TC001622 RA
      ggggtttaa cctaactta taacagcta atacgtaag 
atggtaaat cagttatta cagttgggt aaatttact 
attttacgt tgtggaata acatcacga ctgagcttc 
gtttaataa ttcccgttt aaccatttt ttgtccact 
gttttttaa ttcttcagt tgttccttt tggtgtcag 
ttcctcatt taccaattt ttaacccaa ctgcatgtt 
tcattttat ttcctctaa aggtgatgg gtaactttt 
ccccgtctt tccattata attttcatt aattcattt 
catttttcc tactaatgg atcaagaaa cttgttatt 
ttctccagt aaaaggtaa ggaaatgat attattaac 
ggctgtccg ctccgcgga tgattttat attatgata 
atatttatt gtaatataa acgtttgaa tcttttaag 
agaccagtc tcgcaaatt ttgtagaaa agaaatatt 
taaatttca gttattcaa ttatctgat gtggtcgca 
aactgaaat ttaaatact gtgaacatt ctacgtctt 
cttttctaa gccagtatt ttcattttt atagatctc 
ggtgcctat taatcgttt gtttgacat tttaaagaa 
tggttaaat tttttgttt cagtctcac gaagtactt 
caacccacg gaaaacgaa tcgtattac tatattagt 
aattcgggc cagtacttg ctcactgtt gcggaattc 
aaagatatt gttagaact ctcgaaaat tctgagaat 
aatctactc attttcttt ttagaaatg ttttctaaa 
gtgaaagta tcttaaact catgcctgg atttttaca 
ggtgtctta gtagtaata acaactttt ttaaatatg 
ttgatcaac cgtgaaata cacttgtag tattattta 
ctacgaagt tttacgacg tctgatacc gtgttaata 
gacttaaaa tttaacttt ttaaccgaa tctttgatt 
tcacctcag tatcacttt tcctgttga tgctaagcg 
tgaaatatc ggtgttttt tcactttgt gctaggttt 
tgattcttg tcagtacaa gggtttagt ttgtgttta 
aaataattg catttttcg gtccgccat gttgtcggc 
gttaaagtg ttgctcagt tcgcagctg cgcagcttt 
tcgttacct aataggttg tttcactca gcttaagtg 
tatttgtgt tgtttcatt ttgaatttg aaatatagt 
ttggtttgt aaaactttg ttttctatt tttaacttg 
aaaatcgca cgcttttca ttcggtaaa attagtgag 
aattacttg acttcttcg ccgaatttc tttgcgcca 
ttccgtaac aagttttat tctgtgaaa gaacatatc 
gatctctaa acaattttc ggaattact tctcggata 
aagtttgga aaccgccgc agtcgtgcc caagccaat 
tttaggtcc ctaagaaac acgaagcac cttaaataa 
atgtcgtcg gaagactcg gagaggaag atttcgtta 
aaaaatcga atgcgtttc gcagtttta ttgaggtta 
ctttaggaa actttattt aaaatcacc aggtttgta 
tttttttgt taaatattt aaataagta gctattttg 
gttgaaaca actgacgca ttgaaatag tctatttgc 
tacaaggtg gttataaat gatttccat caagtgggc 
cggtggcga cttgatgga aaatcattt ataatcact 
ttgtagttg ccgacacgg tgaaataca tggggcggg 
gcttgcgaa agcgacgca cgccattgg ctcatatat 
tttcactgt gattctaac gcccttctt ctcgaataa 
cttaactta tgcgaaaat agaatataa tcggcctac 
tcatacttg aaatgtcga actatatat aattctctg 
atcaataac tagtcactt tttattcta cattaaatg 
ggaggctat gcaaaactt gatcaaaat tagctgtca 
tagccaact gtattgcca tattcaacc aagcgaatt 
gatttgagt ttttggcaa caatatatt gtattgatt 
ttaattgtg attttgatg ttcacaggt acataaaaa 
atcgcaccc tccgcgata tcgaagcaa aggctgagg 
attaggtac cacccgagc ccgaaggac tacgactgt 
gatattctg tacctgatt ttattaaaa aatatattt 
tttactcga gtttttatc ccccctcac ctttgttac 
tgaatagtg tagtcacaa aagacatgg tgcacaccg 
gaagtggtt ccaaaaatt ttgcaaaaa atttgaagc 
gaaaaaatc gtactggcg gcgcatgcg tgccatcaa 
ttagccgac gctcatgcg tgttgtcga atttccacg 
aaaagtgtt gtctatttt agcaagtaa tctagtatt 
aaaaattca tttgtttgt ttgatttcg agtttgcgg 
atccaggcg accaaaaaa tgcctgtta gaaaagcca 
tacatgctg gtagttggt acacagact caggtcccg 
aattatcgc ggcagctcg aatattggc tgcaccaag 
ccgacttaa tccacggtc ctgctcggg ctataatcg 
ctccacatg cgggctatc agtactgcg gcgcttgcg 
gggggcacg cgtacagac aagtcagtc ctgtcgtgg 
taaggcgta tatttattt taggacctt ctcaccatg 
tccgtttat caggatgtg ccttgtcca cagcgcgaa 
aatacaaga ccccccttt acgacttac atgtagatt 
ctcaagtaa acggcgaat tagaaatga cgggtcagt 
tcgaatgga tggacttag atactgacg aaaatgagc 
acagtattg aaatgcatt taccctaca tagcgaaag 
ttatggaaa attacaaac accaattca ccatagtac 
ctattcttg tgggttcgc tcagtcccg agcgggagg 
cttgctacg gtcggatac tatcgagct acctaggag 
accctcaaa accttttca taatatcgt cagatttct 
gccactggg gccaccggt ttcgctaca cgtattacg 
accgttctt acggcagca tctaccaat cgatagaag 
aactcgatc gtttgggga tgaacataa tagaaaatc 
taaatccga ccgacttca cgaattatt taaagaaat 
tcggaaaca cgatttgtg gtagacatc cgatcggga 
tactactgc aggccgtgc aggagctcc tgcggaacg 
acagtcgga gaaacgcga atttgaaat tcctgaaat 
atgctcagt caagtcagt gtcgtaata tgaatgact 
cgtcagtga gttacgcat cggctgccc ttgtgttcg 
agtagtcag tggccttac agctatcac attgactgt 
tattaaaat ggaacacct tgattaatg attgtgcga 
aatttttta actacccta gggataatt acgttgatt 
ttaagctta tcgtaacga ttaattttt gtaaagcta 
aattctaaa acgatagtt taggtttgt taagtttat 
tttttacta acggttcca ccaagtgac atcactgtg 
agttggcgc gtttcggga cggacaaga tcaattcaa 
ttttatcgt gttatattt gttaaatgt ggtggtttg 
caatattag tataaggaa ggttgtgaa attttgcat 
cgtaggtcc cccgaatgt tttgtttta tgcttgcta 
tgcagtaca actctaatg atctggagg gtgttgatc 
gcttggtag atgtattta agagtacca aaatgttag 
aataatctt tatatagtg gatctggat attgggagt 
tatgctgta ttttcagtc ctgtgagca tagtgatag 
gctaggagt ttggtttat tatgttctc gtaattagc 
ttgccggcg tttatagga ctaaaatca gcgcgaatt 
taattaatt tctaccttt atataaatt ttaatagag 
tatgtgcta atgttaggg gtatgaata tacaataaa 
ttgtcctac tgtaggcct acggttcgt aagcctaaa 
gactgtaaa tttacaata tgaagtaca tatgccttt 
aatcaatca atctattgg atgtataaa ctgtgaatg 
caattttat atcattctt gtaacacga aataaatgt 
gaaaaatat tt

    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