Status
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Gene information
General information
TC030257 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: 999486..1002663
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
    		TC030257
    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_08602

    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: 2 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

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

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): 50% - 80%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    cuticle remnants with unidentifyable segments - 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
    • >TC030257 RA
      MTKSTVYDT VSWLILLSL LLGLYPSYL QTVGKCQRL 
KTDKNCTIV IIFHLILFA VLLYFASLE KNPLFDGQL 
YSFNTFAKL LIFVVSLSG NSAVFIMLI ISFMHKKSF 
KNFVNNVAA LDETLAKLG QYINYETDY YVCLAMTIT 
GPLVIIGNI AMELWNMPR ENIEPLPNV ILACHMLSF 
LMVHQGETQ FVAANVILK TRFKTINNI LENLWAKKL 
IVVKDKKKS RSDEQTIDI CMRCHDQLC DMCGAINML 
FGFPIIIGC LIQFNTIVF SFCYCYYNS KMTKDGVYN 
TLFFIVYVS LLLGPHPTY FGKTGRKTV LKTNKYCNF 
IILFYLSVF VILVYYASL DETPNPVTN GKLYNFNTF 
AKLLILVVS LSGTFGFFG THILSYINK ASFKKIVNT 
VATFDETWA KLGLEINHK EDFRVCLVF TLTGPFFTF 
CNVLMEMWN IPRENIDPI PLVVVLTHL IPFMLIHQG 
ETQFVVANI ILRRRFALI NSILRKLYK NKYRKLIVD 
GKKSEEQIV DICIRSHDK LCDVCDSVN RIFGFIIII 
GCLIQFNTI VFAFCYCYY SISIRPIST LGWFFWSLL 
RIYELARKA AFAHLNSNE ARATLNWVS KLIIRSNPS 
LEEKLQIFA LQLTHRAPT FTALGLFPI NGSFAFTVV 
GAATTYITI IYQFQVNKP TCGP
    CDS sequence
    • >TC030257 RA
      atgaccaaa agcacagtc tatgacact gtttcctgg 
cttattctt ctatcactc ctcctaggt ctctacccc 
agctatttg caaaccgta ggaaagtgt caaagactc 
aaaactgat aaaaactgc actattgtc atcattttc 
cacttaatt ctcttcgca gttctgctg tatttcgca 
agcttggaa aaaaacccg ctcttcgat ggacagtta 
tacagtttt aacactttt gcaaaactt ttaatcttc 
gtagtgtct ttatctggg aacagcgcc gtgtttatt 
atgctcata atcagtttt atgcacaaa aagagtttc 
aaaaacttt gtcaacaat gttgcggcg ttagacgag 
acgttggca aagctggga caatacatt aattacgaa 
acagactac tacgtttgt ttggctatg accataact 
ggaccactt gtaataatc gggaacatt gcaatggaa 
ctgtggaat atgccacgt gaaaacatc gaacctctc 
cccaacgtc atactcgca tgccatatg ctctccttc 
ttaatggta caccaagga gagacgcaa tttgttgcc 
gctaacgtt attctaaag acgaggttc aaaaccatc 
aacaacatt cttgaaaac ttgtgggcc aaaaaatta 
attgtggtt aaagataaa aaaaaatcg aggagtgac 
gagcaaacg attgatatt tgcatgagg tgtcacgac 
cagctctgc gacatgtgt ggcgctatt aacatgctg 
tttgggttc ccgatcata atcgggtgt ctcatccag 
ttcaacaca atcgtcttc tccttctgc tactgctac 
tacaactcc aaaatgacc aaagacggt gtctacaac 
acccttttt ttcatagtt tacgtgtca cttctccta 
ggcccacac ccaacctat ttcgggaaa acgggccga 
aagacagtc ctcaaaacc aacaaatat tgcaacttt 
atcatactt ttctacctt tcggttttt gttattctg 
gtgtattac gcctccctg gatgaaacc ccgaaccct 
gtgactaac gggaaattg tacaacttt aacactttc 
gccaaactg ctgatcctg gtcgtgtcc ctatcggga 
acgtttggt tttttcggc acccacatc ttgagttac 
attaacaaa gccagtttc aaaaaaatc gtcaatacg 
gtggcaacg tttgacgag acttgggcc aagctgggc 
ctggaaatc aaccacaag gaggatttt cgcgtttgt 
ttggttttc acgttaacg gggcccttt ttcacgttc 
tgtaatgtt ttgatggag atgtggaac attccgagg 
gaaaacatc gatccgatt ccgctggtt gtggtgcta 
acgcatcta attccgttc atgttgatt catcaaggg 
gagactcag tttgtcgtg gctaatatt atacttagg 
cgcaggttt gctctcatc aattcgatt ctccgaaaa 
ttgtataaa aataagtat agaaaactg attgtggat 
gggaagaaa agtgaagaa caaattgtt gatatttgt 
atccggagt cacgacaag ctgtgcgat gtgtgcgac 
agcgttaat aggattttt gggttcatt ataataatt 
gggtgtctg attcagttt aatacgatc gtgtttgca 
ttttgctac tgctattac agcatttcc attcggccg 
atttccacg cttggttgg ttcttttgg tcactgctg 
cgcatctac gaacttgcc cggaaagct gcctttgcg 
catttaaat tcaaatgaa gccagggct actctgaac 
tgggtctca aaactcatc attcgttca aatcccagt 
cttgaggaa aaattacaa atttttgcg ctacaacta 
acgcacaga gcgcccaca tttacagca ctagggttg 
tttccaatc aacggcagc ttcgctttt actgttgtg 
ggagctgcc acgacctac atcacgatt atttaccaa 
tttcaggtc aacaaaccc acttgtggg ccataa
    mRNA sequence
    • >TC030257 RA
      agatgttac ggacaaaaa ggggaacaa ttcccacac 
caaaattcc cacaaacat tcattacca aatctatta 
gtaccaatg agccatcaa gttcaatga tatttgttg 
aaaattaat gactcaacc agtaaaagg cgtcatcgg 
tcaatgctc caccaagtt gattttaat cgaaactaa 
cggtccccc agagagctg ttttggtaa tttaaaagt 
tagttttcg gtcacgacg accgtcagt cacgatgac 
caaaagcac agtctatga cactgtttc ctggcttat 
tcttctatc actcctcct aggtctcta ccccagcta 
tttgcaaac cgtaggaaa gtgtcaaag actcaaaac 
tgataaaaa ctgcactat tgtcatcat tttccactt 
aattctctt cgcagttct gctgtattt cgcaagctt 
ggaaaaaaa cccgctctt cgatggaca gttatacag 
ttttaacac ttttgcaaa acttttaat cttcgtagt 
gtctttatc tgggaacag cgccgtgtt tattatgct 
cataatcag ttttatgca caaaaagag tttcaaaaa 
ctttgtcaa caatgttgc ggcgttaga cgagacgtt 
ggcaaagct gggacaata cattaatta cgaaacaga 
ctactacgt ttgtttggc tatgaccat aactggacc 
acttgtaat aatcgggaa cattgcaat ggaactgtg 
gaatatgcc acgtgaaaa catcgaacc tctccccaa 
cgtcatact cgcatgcca tatgctctc cttcttaat 
ggtacacca aggagagac gcaatttgt tgccgctaa 
cgttattct aaagacgag gttcaaaac catcaacaa 
cattcttga aaacttgtg ggccaaaaa attaattgt 
ggttaaaga taaaaaaaa atcgaggag tgacgagca 
aacgattga tatttgcat gaggtgtca cgaccagct 
ctgcgacat gtgtggcgc tattaacat gctgtttgg 
gttcccgat cataatcgg gtgtctcat ccagttcaa 
cacaatcgt cttctcctt ctgctactg ctactacaa 
ctccaaaat gaccaaaga cggtgtcta caacaccct 
ttttttcat agtttacgt gtcacttct cctaggccc 
acacccaac ctatttcgg gaaaacggg ccgaaagac 
agtcctcaa aaccaacaa atattgcaa ctttatcat 
acttttcta cctttcggt ttttgttat tctggtgta 
ttacgcctc cctggatga aaccccgaa ccctgtgac 
taacgggaa attgtacaa ctttaacac tttcgccaa 
actgctgat cctggtcgt gtccctatc gggaacgtt 
tggtttttt cggcaccca catcttgag ttacattaa 
caaagccag tttcaaaaa aatcgtcaa tacggtggc 
aacgtttga cgagacttg ggccaagct gggcctgga 
aatcaacca caaggagga ttttcgcgt ttgtttggt 
tttcacgtt aacggggcc ctttttcac gttctgtaa 
tgttttgat ggagatgtg gaacattcc gagggaaaa 
catcgatcc gattccgct ggttgtggt gctaacgca 
tctaattcc gttcatgtt gattcatca aggggagac 
tcagtttgt cgtggctaa tattatact taggcgcag 
gtttgctct catcaattc gattctccg aaaattgta 
taaaaataa gtatagaaa actgattgt ggatgggaa 
gaaaagtga agaacaaat tgttgatat ttgtatccg 
gagtcacga caagctgtg cgatgtgtg cgacagcgt 
taataggat ttttgggtt cattataat aattgggtg 
tctgattca gtttaatac gatcgtgtt tgcattttg 
ctactgcta ttacagcat ttccattcg gccgatttc 
cacgcttgg ttggttctt ttggtcact gctgcgcat 
ctacgaact tgcccggaa agctgcctt tgcgcattt 
aaattcaaa tgaagccag ggctactct gaactgggt 
ctcaaaact catcattcg ttcaaatcc cagtcttga 
ggaaaaatt acaaatttt tgcgctaca actaacgca 
cagagcgcc cacatttac agcactagg gttgtttcc 
aatcaacgg cagcttcgc ttttactgt tgtgggagc 
tgccacgac ctacatcac gattattta ccaatttca 
ggtcaacaa acccacttg tgggccata aaaaattag 
gttaaaaaa gtgaattag caaaaaatt ctagaaaaa 
ttacctaaa ttatatttt agaaattta gagcggttt 
tggaaaaaa ttactttaa tatttttag cagaaaatg 
caaaagtag gtctgaaaa cagtagctc acgtttgct 
atccttcct agttacaat tcctcataa atatttaga 
taaaacagc tctgatttt ttattttgt aatttttct 
gcaaaaata aaaacatcg tcggctaac cttgttatt 
tccggtttg tttttaata aaattttgc gaaacaa

    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