Status
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Gene information
General information
TC003368 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: 2704178..2709890
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
    		TC003368
    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
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    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
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    Name
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    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_00561

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     head capsule mostly not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head appendages random not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    prothoracic leg sometimes not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003368 RA
      MILAIVIAL ISAPFIWWM LILSKYRSL SNVPGPKPS 
PVIGNSLHI GYRPQDLFN NIVKWAKEY GTVYKIFVA 
NDVRVLITN PELTELVLS SNVHITKSN AYDLLKPWL 
GIGLLISTG KKWKSRRKL ITPTFHFKI LDQFLDVFN 
SCGNVLVQR LSSQVGKDS FDVYPFINL CSLDIICET 
SMGVKIKAQ QGNNTEYVE AVRRFLDIF IIRTFSVWK 
GIDALFKFS SAYSVYKRL LKILHQFTI NIIVQRRGE 
KAQQKTQNV TSDDGIKRK VALLEMLLE SEDNNMLSN 
EDIREEIDT FMFEGHDTT TSGIAFAIL CLAENPKVQ 
EKLYEEVVA VIDNIENIT MQQLQEMKY LEMVLKEAQ 
RLYPSVPVI ERRLEVDCN IGGYDFPKD TFLSLFIYG 
MHHNEKYFP EPEKFDPNR YLPENQAKR HNYAYVPFS 
AGPRNCIGQ KFAMLEMKT TIAKIVKHF KILPVPDYK 
PDLGIAAIL KSYNGVCVR LQHRHGN
    CDS sequence
    • >TC003368 RA
      atgattttg gcaatagtt atagctttg ataagtgca 
cccttcatt tggtggatg ctcattttg tcgaaatat 
aggtcctta agcaacgtc cctggcccg aaaccttca 
cctgtcatt ggtaattct cttcatata gggtacagg 
ccccaagac ttattcaat aacattgtg aaatgggca 
aaagaatac ggcacagtg tacaaaata tttgtggcg 
aacgacgta cgagtcctt attacaaat cctgaactg 
actgaacta gtgctcagc tcaaacgtg cacattacc 
aagtcgaac gcttacgat ttgctcaag ccatggcta 
ggaatcggg ttgttaata agcacagga aaaaaatgg 
aagagtcgt cgaaagctg ataacgcca acgttccac 
tttaaaatc cttgaccaa ttcctggac gttttcaat 
tcatgtggg aacgttctt gtgcagaga ctgtccagt 
caagtgggc aaagattcc ttcgacgtg tatcccttt 
ataaacctc tgctccttg gatataata tgtgaaacc 
tcaatggga gttaaaatc aaagcacag cagggaaat 
aatacagaa tacgtggaa gccgttcgc cgattcctc 
gacattttt atcatccgg acattttcg gtttggaag 
ggaatcgat gccttattt aaattttca agtgcttat 
agcgtctac aaacgctta ttaaaaatt ttacaccaa 
ttcacaatc aacattatc gtccaacgt cgtggggaa 
aaagcgcag caaaaaacc caaaacgtg acgtccgat 
gacggcatc aaacgcaaa gttgccctc ctggaaatg 
ctgctagaa tccgaagac aacaacatg ctctcaaac 
gaagacatc agggaggag attgacacg ttcatgttc 
gaaggacac gacaccaca acctcgggg atcgccttc 
gccatcctc tgcctggcc gagaatccc aaagtgcag 
gaaaaactc tacgaagaa gtggtcgcg gtaatcgac 
aacatcgag aatattacg atgcaacag ctgcaagaa 
atgaaatat ctggaaatg gtgctgaaa gaagcccaa 
cggctgtac ccctctgtg ccggttatt gaacgccgg 
ctggaagtt gactgtaat ataggcggg tatgacttt 
cccaaagat acgtttctc tcgctgttc atctacgga 
atgcatcac aacgaaaaa tatttccct gaaccggag 
aaattcgat cctaataga tatctgccc gaaaaccag 
gcaaagagg cacaattat gcctatgtg ccgttcagt 
gccggccca cgtaattgc attggccaa aaattcgca 
atgcttgaa atgaaaaca accatcgcc aaaatcgtg 
aaacacttc aaaatactg ccagtgcct gattacaag 
ccagatttg ggaatagcc gctattttg aagtcttat 
aacggggtt tgtgtgcga ctccagcat aggcatggg 
aactaa
    mRNA sequence
    • >TC003368 RA
      aaataaatg cctaaaatg caccaacct gaactagtc 
catgatgaa tgtcatcaa gtattgcgt gatcttgtg 
ataaagatc gagtagcaa gttttttgc gacgtcttt 
tgtgcattg tgagaaatc tcccagagc agcctagag 
aaggactag aacccattg catctaaaa gtacccagt 
cttctttgg aaaaacacc gcgtcaaag ttggaactt 
caactggtc ctgcaagga aaataaaac aaatattac 
acgtggact ctgaactga ttttgtgtc caatgccac 
agtaaagaa aacaagccg acttgcttc cgatgcact 
gcgcatcta ttgatagtg tctatcttt tactcgtaa 
atcaacaac tttttcata atttgtatt agtgcgcac 
gtgacctta tatataaac gaataaact gcaattgct 
tgtaatagt tgatcagtg gtgttttat gtcttcaat 
cacaaaact ctgtcatga ttttggcaa tagttatag 
ctttgataa gtgcaccct tcatttggt ggatgctca 
ttttgtcga aatataggt ccttaagca acgtccctg 
gcccgaaac cttcacctg tcattggta attctcttc 
atatagggt acaggcccc aagacttat tcaataaca 
ttgtgaaat gggcaaaag aatacggca cagtgtaca 
aaatatttg tggcgaacg acgtacgag tccttatta 
caaatcctg aactgactg aactagtgc tcagctcaa 
acgtgcaca ttaccaagt cgaacgctt acgatttgc 
tcaagccat ggctaggaa tcgggttgt taataagca 
caggaaaaa aatggaaga gtcgtcgaa agctgataa 
cgccaacgt tccacttta aaatccttg accaattcc 
tggacgttt tcaattcat gtgggaacg ttcttgtgc 
agagactgt ccagtcaag tgggcaaag attccttcg 
acgtgtatc cctttataa acctctgct ccttggata 
taatatgtg aaacctcaa tgggagtta aaatcaaag 
cacagcagg gaaataata cagaatacg tggaagccg 
ttcgccgat tcctcgaca tttttatca tccggacat 
tttcggttt ggaagggaa tcgatgcct tatttaaat 
tttcaagtg cttatagcg tctacaaac gcttattaa 
aaattttac accaattca caatcaaca ttatcgtcc 
aacgtcgtg gggaaaaag cgcagcaaa aaacccaaa 
acgtgacgt ccgatgacg gcatcaaac gcaaagttg 
ccctcctgg aaatgctgc tagaatccg aagacaaca 
acatgctct caaacgaag acatcaggg aggagattg 
acacgttca tgttcgaag gacacgaca ccacaacct 
cggggatcg ccttcgcca tcctctgcc tggccgaga 
atcccaaag tgcaggaaa aactctacg aagaagtgg 
tcgcggtaa tcgacaaca tcgagaata ttacgatgc 
aacagctgc aagaaatga aatatctgg aaatggtgc 
tgaaagaag cccaacggc tgtacccct ctgtgccgg 
ttattgaac gccggctgg aagttgact gtaatatag 
gcgggtatg actttccca aagatacgt ttctctcgc 
tgttcatct acggaatgc atcacaacg aaaaatatt 
tccctgaac cggagaaat tcgatccta atagatatc 
tgcccgaaa accaggcaa agaggcaca attatgcct 
atgtgccgt tcagtgccg gcccacgta attgcattg 
gccaaaaat tcgcaatgc ttgaaatga aaacaacca 
tcgccaaaa tcgtgaaac acttcaaaa tactgccag 
tgcctgatt acaagccag atttgggaa tagccgcta 
ttttgaagt cttataacg gggtttgtg tgcgactcc 
agcataggc atgggaact aaacagtaa taattgtaa 
taattatta ggttaagaa cacaaaagg agtgtgtca 
atgtcatta cgttcaata aatgttttt tacttga

    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