Status
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Gene information
General information
TC008849 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: 10747703..10757634
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
    		TC008849
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01427

    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: 20.0% (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

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

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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

    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: 2 - Number of animals showing the phenotype: 2
    ovary without detectable defects - Number of animals showing the phenotype: 2
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008849 RA
      MWCLISQAN SVVFEVRVD PKAIGQECL EKVCEFVNV 
QYESDYFGL KYENHKGEE SWLNLRNPI DRQVTFHGH 
TSYLRLSLR VKFWVPPHI LQQESTRHQ FYLNARLHL 
LEKRLTAPD WASISRLIA FIAQAECGD FNELDPPRN 
IYNLATTIA PLDQSEKPG DLLQRIVHE HKKCKGMKS 
SSAEYWFLK EVSEFENFG EETFTVKNH QNNNTVYGI 
GPHGITIYK KDGEKELIS FTNITSASS HKRTFKLEY 
LTIDNEGAI LNIKLDSSH VASSLYRAI TEKHAFYSC 
ETVRSAVTA QFIRDLKGT IVSIFNEDS TLGKKYVFD 
IRRTCREVY DNARRALYL ENTIQEITR ANLDYNGNA 
GECKNSQEK LSRFLDAMT CKICMDGQI DAIFLPCGH 
GVACMACAS RCDRCPLCR SDIAQAKKV FLPIDYLLV 
GQTTN
    CDS sequence
    • >TC008849 RA
      atgtggtgt ctcatcagc caggccaat tcggtcgtt 
ttcgaagtc cgggtcgac cccaaagcc atcggccag 
gaatgtctc gagaaggtg tgcgaattc gtgaatgtg 
caatacgag tctgattac ttcggattg aagtacgaa 
aaccacaag ggagaggaa tcctggtta aatttacga 
aaccccatc gatcggcaa gtgactttt cacggccat 
acgtcctat ctgcgctta tcactgcgg gtgaagttc 
tgggttcct cctcacatc ttgcagcaa gaaagcacc 
cgtcaccag ttttacctc aacgcgaga cttcatctg 
ttggaaaaa cgcttaaca gccccggac tgggccagc 
atttcaaga ctgatcgct tttatagct caagctgaa 
tgtggcgac ttcaacgaa cttgatccg cctcggaat 
atttacaat ttagctaca acgatcgct cctttggat 
cagtcggag aaacccgga gatttgcta cagaggatc 
gtccacgag cacaaaaaa tgcaaaggg atgaagagc 
tcttccgcc gagtattgg tttttgaag gaagtgtcg 
gagtttgag aatttcgga gaggagacg ttcacggtg 
aaaaatcac cagaataac aacacggtg tacgggatc 
ggccctcat ggcatcacg atttacaaa aaggacggg 
gagaaggag ttgatttcg ttcactaac ataacgagt 
gcttcctcc cataagcgc acttttaaa cttgaatat 
ttgaccatc gataacgaa ggggctatt ctaaatatt 
aaactagat tctagccat gtggctagt agcttatat 
cgggccatt acggaaaaa cacgccttc tacagctgc 
gagacggtt cgcagtgcc gtaacggca caatttatt 
cgagatctg aaagggacc attgtttca attttcaac 
gaggactcc acattgggc aaaaagtac gtgttcgat 
attcggagg acctgcaga gaagtctac gacaatgca 
agaagagcc ttgtatttg gaaaacact attcaggaa 
atcactcgc gccaatctc gactacaac ggcaacgcg 
ggagagtgc aagaattcc caagaaaaa ttgtcgaga 
tttctggac gcaatgacc tgtaaaatc tgcatggac 
ggccagatc gacgcgatt ttcctgccg tgcgggcac 
ggggtggcc tgcatggcg tgcgcctcg cgctgcgac 
aggtgcccc ctttgtcgt tccgacatc gcacaagcg 
aagaaggtg tttttgccc attgactac ctcctggtg 
ggtcagact acgaattga
    mRNA sequence
    • >TC008849 RA
      tgagtcagg tgcgttcgc tgttcgcgt gcgctgtca 
ccccgtatg tctgagctg aaccaaata aatgtgaac 
aaggaactt cgatttaat attgtccaa gctgttgca 
tagtatgga cgttgtcgt aaaatgtgc aaagagttt 
atacaacaa acgatacgc cgtcagtat atcagaaca 
ttgcgattt tgtcaaatg atcagtggc ttctgctag 
cgatttttc gtctagcca attttgagg ttcatttta 
cgaattttt ggaaaatgt ggtgtctca tcagccagg 
ccaattcgg tcgttttcg aagtccggg tcgacccca 
aagccatcg gccaggaat gtctcgaga aggtgtgcg 
aattcgtga atgtgcaat acgagtctg attacttcg 
gattgaagt acgaaaacc acaagggag aggaatcct 
ggttaaatt tacgaaacc ccatcgatc ggcaagtga 
cttttcacg gccatacgt cctatctgc gcttatcac 
tgcgggtga agttctggg ttcctcctc acatcttgc 
agcaagaaa gcacccgtc accagtttt acctcaacg 
cgagacttc atctgttgg aaaaacgct taacagccc 
cggactggg ccagcattt caagactga tcgctttta 
tagctcaag ctgaatgtg gcgacttca acgaacttg 
atccgcctc ggaatattt acaatttag ctacaacga 
tcgctcctt tggatcagt cggagaaac ccggagatt 
tgctacaga ggatcgtcc acgagcaca aaaaatgca 
aagggatga agagctctt ccgccgagt attggtttt 
tgaaggaag tgtcggagt ttgagaatt tcggagagg 
agacgttca cggtgaaaa atcaccaga ataacaaca 
cggtgtacg ggatcggcc ctcatggca tcacgattt 
acaaaaagg acggggaga aggagttga tttcgttca 
ctaacataa cgagtgctt cctcccata agcgcactt 
ttaaacttg aatatttga ccatcgata acgaagggg 
ctattctaa atattaaac tagattcta gccatgtgg 
ctagtagct tatatcggg ccattacgg aaaaacacg 
ccttctaca gctgcgaga cggttcgca gtgccgtaa 
cggcacaat ttattcgag atctgaaag ggaccattg 
tttcaattt tcaacgagg actccacat tgggcaaaa 
agtacgtgt tcgatattc ggaggacct gcagagaag 
tctacgaca atgcaagaa gagccttgt atttggaaa 
acactattc aggaaatca ctcgcgcca atctcgact 
acaacggca acgcgggag agtgcaaga attcccaag 
aaaaattgt cgagatttc tggacgcaa tgacctgta 
aaatctgca tggacggcc agatcgacg cgattttcc 
tgccgtgcg ggcacgggg tggcctgca tggcgtgcg 
cctcgcgct gcgacaggt gcccccttt gtcgttccg 
acatcgcac aagcgaaga aggtgtttt tgcccattg 
actacctcc tggtgggtc agactacga attgaaaga 
ctgcatttt tactttact aagatctcg aatagttta 
gttgtggaa gtggacaga gtacacaag tgacaatcg 
tataatttt tgatctttt cttgtgatg ttttgttaa 
ccaaaatct catattgag gtttgtttt gtacattgt 
taagtatct atctacata ctatttttt actatgtaa 
agtatgaag gacctaaag tgttgtatt ttattaact 
attgacaat agtaagaaa atgcaaaag ctatcgaaa 
tgtaaatga catgaatta ttaatagtc atattatca 
atgcaagat gtaaattag gtttagttt cgatatttg 
ttaatataa taaaaatgt tataatgct agtattata 
atgagaaat gtgtgataa gaaattttt gttttgtga 
tattgcatt catttggaa aattaagtt tacgtttat 
actatcaaa ttttattaa tcgatgtta aagtaaagt 
gtagacgtg tatatgtca catatttac aagtatttt 
gttattagt attataacg agtatatct gttaaattt 
tttgctatt cacgtttac gtcaacatg gaattacaa 
taattattt atgttgttt tatttcaaa aaaaacctt 
ccttattta ctaataaag gtaagtgga attg

    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