Status
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Gene information
General information
TC008154 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: 5843998..5854519
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
    		TC008154
    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_07183

    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)

    adult lethality - Number of animals showing the phenotype: 3 (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: % (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
    • >TC008154 RA
      MTMLTSKAK HYLHCCLFI YVIFMFEIF TGGIKLLDG 
AFFVPAEDI NPWVHYGYL GALVLYLLR LVTFLPLPQ 
VLFNFIGLT YYNAFPDKV VLKASPILA PFICIRVVT 
RGDFPQLVK NNVNRNMNK CLDAGLENF LIEVVTDKK 
LGMEKHRKV REIVVPQDY RTKSGALFK ARALQYCLE 
DDVNVLSPN DWIVHLDEE TLLTENSVR GILNFVGDG 
KHQFGQGLI TYANEEVVN WITTLADSF RVTDDMGKL 
KLQFRMFHK PLFSWKGSF VVTQVGAER EVSFDNGLD 
GSIAEDCFF AMKAFSKGY SFNFIEGEM WEKSPFTFW 
DFIQQRKRW IQGILLVVH SKDIPLRNK LLLACSCYS 
WLTLPLSVS NLVLASKFP IPCPPIIDF ICAFIGAVN 
IYMFVFGVI KSFTVYRFG LGRFVLCLC GAVLVIPFN 
LVIENVAVI WGIFGKKHK FYVVNKNAR PQVTV
    CDS sequence
    • >TC008154 RA
      atgacaatg ctgacgagc aaagcgaag cactacctc 
cactgctgt ctcttcatc tatgtgata ttcatgttc 
gagatcttc accggaggg atcaaactc ctcgatggc 
gcttttttc gtccccgcc gaagacatc aacccctgg 
gtgcattac gggtacttg ggcgcgttg gtgctctac 
ctgcttaga ctagtgact ttcctcccc ttaccccaa 
gtgttgttt aatttcatc ggactgact tactacaac 
gcgttcccg gataaagtc gttttaaaa gcgtcgccg 
attttagcg ccgttcatc tgtattagg gtggtgacc 
aggggcgac ttcccccag ctggtcaag aacaacgtc 
aaccggaac atgaacaag tgtctagac gccgggctg 
gagaacttc ctcattgaa gtcgtgact gataaaaaa 
ctggggatg gagaagcac aggaaggtg agggagatt 
gtggtcccc caggactac cggaccaag tcgggggcg 
cttttcaaa gcccgagcg ctgcagtac tgcctggag 
gacgacgtc aatgtcttg tcgccaaac gactggatc 
gtgcacctg gacgaagag actctcctg acggagaat 
tccgtccgg gggattttg aacttcgtc ggggatggc 
aagcatcag ttcggacaa gggctgatc acttacgcc 
aacgaagaa gtggttaat tggattacg accttagcg 
gattctttt agagtcacg gacgatatg ggaaagctc 
aagttgcaa tttcggatg ttccacaag ccgttgttc 
agttggaag gggtcgttt gtcgtcacg caggtcggc 
gcagaacgc gaggtttcc ttcgacaat ggccttgac 
ggctcgatc gccgaggac tgtttcttc gcgatgaag 
gccttcagc aaaggctac agtttcaac ttcatcgag 
ggcgagatg tgggagaag tccccgttc accttctgg 
gacttcatc cagcagcgg aagcgctgg atccagggc 
atcctgctg gtggtgcac tccaaggac atcccgctc 
aggaacaag ctgctcctg gcttgctcg tgctactcc 
tggctcacg ctaccgctg tccgtctcc aacctggtg 
ctggcgtcg aagttcccc atcccctgt ccgccgatt 
attgacttt atttgtgca tttatcggt gctgtgaat 
atttacatg tttgtgttc ggtgtcata aagtcgttt 
acggtttac aggttcgga ctgggacgg tttgtgcta 
tgtttgtgc ggagcggta ctcgttata ccctttaat 
ttagttatc gaaaacgtc gcggtcatt tgggggatt 
ttcggcaag aaacataag ttttatgtt gttaataag 
aacgcgcgg ccgcaggtg acggtctag
    mRNA sequence
    • >TC008154 RA
      ttaaacgaa aaactgcga taaaatttt agattttgg 
gacaatttg gctgtgttt atgcaatag aattatcag 
cgctgtatt aaaccttgc cgagctaca cccattaaa 
tgtggaata ttggtttct gcgatgcgc atgcctccg 
taagcccca tacagagga atcaacaga aaagccgcg 
atagcattc tcattgcag atgtctggt gccgaatga 
tggtgtagt tggacgctc gaacccggc ttttgcaaa 
tccgtcaca ttttatctg tgatatgta aagtgacgt 
tccacccct tggtagtac aggccgtcg ggcaccgag 
tggtgaaaa tcctgcttg cgtgattag tgtccagtg 
cgagggttg tttgccgaa atgacaatg ctgacgagc 
aaagcgaag cactacctc cactgctgt ctcttcatc 
tatgtgata ttcatgttc gagatcttc accggaggg 
atcaaactc ctcgatggc gcttttttc gtccccgcc 
gaagacatc aacccctgg gtgcattac gggtacttg 
ggcgcgttg gtgctctac ctgcttaga ctagtgact 
ttcctcccc ttaccccaa gtgttgttt aatttcatc 
ggactgact tactacaac gcgttcccg gataaagtc 
gttttaaaa gcgtcgccg attttagcg ccgttcatc 
tgtattagg gtggtgacc aggggcgac ttcccccag 
ctggtcaag aacaacgtc aaccggaac atgaacaag 
tgtctagac gccgggctg gagaacttc ctcattgaa 
gtcgtgact gataaaaaa ctggggatg gagaagcac 
aggaaggtg agggagatt gtggtcccc caggactac 
cggaccaag tcgggggcg cttttcaaa gcccgagcg 
ctgcagtac tgcctggag gacgacgtc aatgtcttg 
tcgccaaac gactggatc gtgcacctg gacgaagag 
actctcctg acggagaat tccgtccgg gggattttg 
aacttcgtc ggggatggc aagcatcag ttcggacaa 
gggctgatc acttacgcc aacgaagaa gtggttaat 
tggattacg accttagcg gattctttt agagtcacg 
gacgatatg ggaaagctc aagttgcaa tttcggatg 
ttccacaag ccgttgttc agttggaag gggtcgttt 
gtcgtcacg caggtcggc gcagaacgc gaggtttcc 
ttcgacaat ggccttgac ggctcgatc gccgaggac 
tgtttcttc gcgatgaag gccttcagc aaaggctac 
agtttcaac ttcatcgag ggcgagatg tgggagaag 
tccccgttc accttctgg gacttcatc cagcagcgg 
aagcgctgg atccagggc atcctgctg gtggtgcac 
tccaaggac atcccgctc aggaacaag ctgctcctg 
gcttgctcg tgctactcc tggctcacg ctaccgctg 
tccgtctcc aacctggtg ctggcgtcg aagttcccc 
atcccctgt ccgccgatt attgacttt atttgtgca 
tttatcggt gctgtgaat atttacatg tttgtgttc 
ggtgtcata aagtcgttt acggtttac aggttcgga 
ctgggacgg tttgtgcta tgtttgtgc ggagcggta 
ctcgttata ccctttaat ttagttatc gaaaacgtc 
gcggtcatt tgggggatt ttcggcaag aaacataag 
ttttatgtt gttaataag aacgcgcgg ccgcaggtg 
acggtctag aggctgaag gtggatgca gaaaatgag 
aaacgccca atgcggaac tcggacggg ttctcattt 
tccgcctag tgaaaattt ttactttgt tgtcctttt 
ataatatac gatgtatta aagatcagg tattttaat 
acggagcgg tttcacaat tggccacct catccatgt 
atttattac gagtcattc atttcacta tcaattatg 
aaatcgccg ggttagtat ttatgcaaa attggaaac 
agcgcaaac attgttttt ttccatctt attacggac 
agctttatt aaaacgctg ccttatcaa gatttatac 
gttccataa actccccca tttcggtgc aaaacaatt 
accttacta cgggaggac caagtatcg acttatcga 
aaacttcgg cttttttat gtgttcctg agtcgcgaa 
atacgtatt ttctttcac cgtttcctg cattcttca 
ctagcttcc actgtagct tgccattaa ataagcgga 
ttttgttgt agaaaatca aaacgatta gaatcaaaa 
gtgtccaga gccaatttt tattgagat taacaagta 
gtttgttat tgattggtg ttccaaagt aatgaatta 
gtgtgcgaa gcctctatt ccttgtaca gtaacaaag 
ttctagcgt tatgttgtt taatttaag acgtaaaca 
tgtccattt agtaaactg gtctagtgc atgtttata 
gaacaaaat tttaatact cgccggctc ttcatgtga 
ctgttaaga ataagtgaa taccccaaa gattatttt 
ttattgtgt gtaaataac tttgttttt gtgatgaat 
tcattaaat tttctttca ctgaagaca tactagtca 
ttattgatt atccaaata gcatcggtt gatcttact 
tagctgcta gttcgtgta gttcattgt gatttcggg 
ctatttttt cgagaagca aaaattgtt gttttgaag 
ccgactgat gatttttta tgtacaaaa cgttaagta 
ataaaatgc acaatgcca a

    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