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Gene information
General information
TC008241 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: 7147213..7151790
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
    		TC008241
    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_01324

    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: 3 (3 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     larva appendages irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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: 70.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 80.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 0 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008241 RA
      MALFKVQAL YDFVGESNT AELSITTGE VLTVTRTDI 
GEGWWEGLN SRGQSGLFP EAYVAKIEE TAPPNMPPP 
ALPPQNDWT GAQQDDDWD DEWDNDDTY SEIANNAQR 
EPHYTNEPN QNQFAYGSG QVDNISESS YNVDNRVTK 
KSLNIFSSY VKSGLESYI FGTLKDIPS HTKIRIFRE 
NDNVFRWEL ISDPYTVQV TSPKKASKM GGLKSFIAY 
QLTPSFTGI EVSRRYKHF DWLHDRLSE KFNIIAIPP 
LPDKQISGR YEEHFIEHR RVQLQEFVN YVCRHPVLS 
TCDVWRHFL TCTNEKQWK EGKRKAEKD QLVGANFCL 
CIEAPDKDL LASTIESKI ESSISYINQ MDQCIKGLM 
QTASDQQKK CENLYKREH TKIGESFFQ LGVAFEHRE 
GGLFSDLAT DVKKIGTTY IEIAKLCED QAKIDWQPL 
TDKLYLYRG ITSSYPDIF SMQKHAEQK KKECERNTQ 
FSHQQITEV RKRTDVLTY SVFAELDHF QAEMNTEFR 
SAMRSFLQE QVNYYKNVV SRLEDTLRK FE
    CDS sequence
    • >TC008241 RA
      atggcccta ttcaaagtc caagcactt tacgatttc 
gtcggcgag tccaatact gccgagctc tcaattacg 
accggcgaa gtgctaacg gttacgaga actgacatc 
ggcgagggc tggtgggaa ggactgaac tcgcggggg 
cagtcgggg ctcttcccc gaggcctat gtggccaag 
atagaggag acggcgccc ccgaacatg ccgcccccg 
gccctgccg ccgcagaac gactggacg ggggctcag 
caagacgac gattgggac gatgagtgg gacaatgat 
gacacatac agcgagatc gctaataat gcacaaagg 
gagccccat tacactaac gagcccaac cagaatcag 
ttcgcctat gggagcgga caagtggat aatatttcg 
gaaagtagc tataatgtg gataacaga gtcaccaag 
aagagttta aatattttc tcgtcgtat gtgaaaagt 
ggattagaa agctatatt ttcggcacg ttaaaagac 
atcccatcc cacacaaaa attcgaata tttcgagaa 
aacgacaac gtgttccga tgggaactg atctcggac 
ccgtacacg gtccaagtg acctcacca aaaaaagcg 
tcaaaaatg ggcggcctc aaatcattc atcgcatat 
caattaaca ccatcgttc accggaatc gaagtatcc 
cgccgttac aaacacttc gactggctg cacgaccgc 
ctctccgaa aagttcaac ataatcgca attcctccg 
ctaccggat aaacagatt tcgggccgg tatgaggag 
catttcatc gagcaccgg agagtgcag ctgcaggag 
tttgtcaat tacgtgtgt cgacatcca gttctgtcg 
acttgcgac gtttggagg cattttctc acctgcact 
aacgaaaaa cagtggaag gaaggcaag agaaaagcg 
gagaaagac cagttagtc ggggcgaac ttttgcctg 
tgcatcgag gccccagat aaggacttg ttagcgtcg 
actattgaa agtaaaatt gagagtagc atatcgtac 
attaaccaa atggaccag tgcatcaag ggcttgatg 
cagacggcg tccgatcag cagaaaaaa tgcgagaat 
ttgtataaa agagaacat acgaaaatt ggcgagagc 
tttttccag ctcggggtc gcgttcgag cacagggaa 
ggtggattg ttctcggat ttggccaca gatgtgaag 
aaaattggg accacttat attgaaatc gccaagttg 
tgcgaagat caggcgaaa atcgattgg cagccgcta 
accgataag ttgtacctc tacaggggg atcacgagt 
tcgtacccc gatattttc tcgatgcaa aaacacgcc 
gaacaaaag aagaaggag tgtgaaagg aacacgcag 
ttctcacac cagcaaatc actgaagtt aggaagcgc 
accgatgtt ctgacttac tcggttttc gccgaactc 
gaccatttc caggctgag atgaacacc gaatttcgg 
tcagccatg cggtcgttt ttgcaagaa caggtcaac 
tattacaaa aatgtagtg agcagattg gaagacacc 
ttgaggaag tttgagtag
    mRNA sequence
    • >TC008241 RA
      tcgcagtaa ccacctgca gttgtcagg aaagtgatg 
acgatcgct aaagataaa taaatccgc ctaaaaaca 
tcgtacaac ttccacttt cctcgaaaa acgagctta 
aattgccat ccgtgcgcg aaaagtgcc ttaaacttg 
ggtgtggtg ttgtgcgtt caactgtca atttatagg 
ttatccaag tgtcatcgt gaaagttca aagcctccc 
acttaatgc caccgtctg acatttccg agtgaatcc 
cttcgtaat ggccctatt caaagtcca agcacttta 
cgatttcgt cggcgagtc caatactgc cgagctctc 
aattacgac cggcgaagt gctaacggt tacgagaac 
tgacatcgg cgagggctg gtgggaagg actgaactc 
gcgggggca gtcggggct cttccccga ggcctatgt 
ggccaagat agaggagac ggcgccccc gaacatgcc 
gcccccggc cctgccgcc gcagaacga ctggacggg 
ggctcagca agacgacga ttgggacga tgagtggga 
caatgatga cacatacag cgagatcgc taataatgc 
acaaaggga gccccatta cactaacga gcccaacca 
gaatcagtt cgcctatgg gagcggaca agtggataa 
tatttcgga aagtagcta taatgtgga taacagagt 
caccaagaa gagtttaaa tattttctc gtcgtatgt 
gaaaagtgg attagaaag ctatatttt cggcacgtt 
aaaagacat cccatccca cacaaaaat tcgaatatt 
tcgagaaaa cgacaacgt gttccgatg ggaactgat 
ctcggaccc gtacacggt ccaagtgac ctcaccaaa 
aaaagcgtc aaaaatggg cggcctcaa atcattcat 
cgcatatca attaacacc atcgttcac cggaatcga 
agtatcccg ccgttacaa acacttcga ctggctgca 
cgaccgcct ctccgaaaa gttcaacat aatcgcaat 
tcctccgct accggataa acagatttc gggccggta 
tgaggagca tttcatcga gcaccggag agtgcagct 
gcaggagtt tgtcaatta cgtgtgtcg acatccagt 
tctgtcgac ttgcgacgt ttggaggca ttttctcac 
ctgcactaa cgaaaaaca gtggaagga aggcaagag 
aaaagcgga gaaagacca gttagtcgg ggcgaactt 
ttgcctgtg catcgaggc cccagataa ggacttgtt 
agcgtcgac tattgaaag taaaattga gagtagcat 
atcgtacat taaccaaat ggaccagtg catcaaggg 
cttgatgca gacggcgtc cgatcagca gaaaaaatg 
cgagaattt gtataaaag agaacatac gaaaattgg 
cgagagctt tttccagct cggggtcgc gttcgagca 
cagggaagg tggattgtt ctcggattt ggccacaga 
tgtgaagaa aattgggac cacttatat tgaaatcgc 
caagttgtg cgaagatca ggcgaaaat cgattggca 
gccgctaac cgataagtt gtacctcta cagggggat 
cacgagttc gtaccccga tattttctc gatgcaaaa 
acacgccga acaaaagaa gaaggagtg tgaaaggaa 
cacgcagtt ctcacacca gcaaatcac tgaagttag 
gaagcgcac cgatgttct gacttactc ggttttcgc 
cgaactcga ccatttcca ggctgagat gaacaccga 
atttcggtc agccatgcg gtcgttttt gcaagaaca 
ggtcaacta ttacaaaaa tgtagtgag cagattgga 
agacacctt gaggaagtt tgagtagtt tttcttgcc 
ttgttatca tctatcgtg tttatttcc aagccaaaa 
caattgtga tttaacttt ttattatat aatctgtta 
tatgtttat ccttacgtg ctgtgtata ttatggaaa 
ttccaacgt ttacattaa tttttattt aatagaatc 
accgagaca tattttgta catgaaatg taattgtat 
atttctata tattttgtt aagtcagat gtaataaat 
gtgcttaca cgaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY
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