Status
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Gene information
General information
TC011171 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_007425.3: 3305363..3350662
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
    		TC011171
    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_01817

    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)

    remarks: later than schedule,
    Pupal morphology
    remarks: later than schedule,
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011171 RA
      MDDYYVNNF TVECTEEVM GPKRDSLYI VVPIIVIYG 
VIFLTGTIG NISTCIVIS KNKTMHTAT NYYLFSLAI 
SDLLLLVSG LPQEIYLIY SRYPYIFGS VFCFLRGMF 
AETSANATV LTITAFTVE RYLAICHPF LSHTMSKLS 
RAVKIILVI WLVAVGLAV PQAMQFELV GPTDCEQCA 
FVKPIIQHS FEISTLLFF VLPMSLITV LYILIGQKL 
KSSTMMKKR NVFGNAATS RVHTKSSRK VVKMLVAVV 
VAFFICWAP FHAQRLYSL YSMKFEGLN HSVYLKIYE 
IVTYISGIL YYISATINP ILYNIMSVK FREAFRETF 
SRCCCFYQF KANRPQRSY SVLSRSAQR GPDSTDSGR 
DDPSLQSHT SVTQKTSLE SYNGVVHSG LRRNKTFST 
FRGADIEEE APADAPWLK DMPDAKSTS EPTTPKFIS 
IHLNAATPP HKIGRFWQY FECLAKRTL DDSKRLSAY 
YTSPAREPS ILMELKSSP KKGQGRCIS PCDISNSSL 
RDVENGAIE DELTTYMKE VKRREIYS
    CDS sequence
    • >TC011171 RA
      atggacgat tactacgtc aataacttc accgtggag 
tgcaccgag gaggtgatg ggcccgaag agggatagt 
ttgtacatc gttgtccct attatcgtc atctacggc 
gttattttc ctcactggg accatcggc aacatcagc 
acctgcatc gtcatctcc aagaacaag accatgcac 
acggccacc aactactac ctcttcagc ttggccatt 
tccgacctt ttgctgctg gtgtccggc ctgccccag 
gagatctat ctcatttac tcgcgctac ccttacatc 
ttcgggagc gtcttctgc ttcctgcgg gggatgttt 
gcggagacg agcgccaac gccacggtg ctgaccatc 
accgcgttc acagtcgag cgctacttg gccatttgc 
caccccttt ctctcccac accatgtcc aagctttcc 
agggctgtt aagatcatc ctggtcatc tggctggtg 
gccgtgggg ctggcagtg ccccaggcc atgcagttc 
gaactagtc ggacctaca gattgtgaa cagtgcgct 
tttgtgaaa cccatcatc cagcattcg ttcgaaatc 
tccactttg ctgttcttc gtgctgccg atgagtctc 
atcaccgtg ttgtacatt ctcattgga cagaagctg 
aagtcgtcc acgatgatg aagaagagg aatgtcttc 
gggaacgca gccacttcc agggtacac acgaaatcg 
tcgaggaaa gttgttaaa atgttagtt gctgtcgtg 
gtggcgttc tttatctgt tgggctcct ttccatgcc 
cagaggttg tacagtctc tactcaatg aagttcgaa 
ggactaaat cattccgtc tatttgaag atatacgaa 
attgtcaca tacataagt gggatcctg tattacatc 
tcagcgaca ataaatcca atcttgtac aatatcatg 
tctgtaaag tttcgtgag gcttttagg gaaacgttc 
tcacggtgc tgctgcttc taccagttc aaggccaac 
cgaccccaa agatcctat tcagttctc tccaggtcc 
gcccaacga ggtccagat tctacagac tcagggagg 
gatgaccct agtctacag tcgcacacc tccgttacc 
caaaaaaca tccctagaa tcctacaac ggagttgtg 
cattcggga ctgagaaga aataaaacc ttttcgacc 
ttccgtggc gccgacatc gaggaggag gccccagcc 
gacgccccc tggctcaaa gacatgccc gacgccaag 
tccacctcc gagcccacc acccccaag ttcatatcg 
attcacctc aacgccgcc acgccgccc cacaaaatc 
ggccgcttc tggcagtac ttcgagtgt ctggccaag 
aggacgttg gacgacagc aaacgcctc tcggcttac 
tacacctcc ccggccaga gagcccagc attctgatg 
gaactcaaa agcagcccc aagaagggc caaggccgc 
tgcatcagc ccctgcgac atcagcaac agcagtctg 
agggacgtt gaaaacggg gccatcgag gacgaactg 
accacttac atgaaggaa gtgaagcgg agggagatc 
tacagctag
    mRNA sequence
    • >TC011171 RA
      acctacact gccaaaaat atcgaaata aatcaaata 
ataacactg caaatagga agtgttcct tttcttctc 
gaaaactcg aatccgaca tgacctaaa gtccgtgta 
aacgcttgg cacctgcta acgcctgcc tgtaattaa 
atcaacaaa aaagcaaaa tttcctgct gaattgttt 
cctgcgcat gaacccacg ctcttgaat gaaccaagt 
aaacagtct tcgcagcag tcctgcaac cgcttcgca 
cgaggcatc cacagcagg aattcctcc gcgcgcgct 
ttcagcgat gtcctgcaa acttttcca aagttttcg 
ttcggagtt tccgaacta gtgctcgca atggacgat 
tactacgtc aataacttc accgtggag tgcaccgag 
gaggtgatg ggcccgaag agggatagt ttgtacatc 
gttgtccct attatcgtc atctacggc gttattttc 
ctcactggg accatcggc aacatcagc acctgcatc 
gtcatctcc aagaacaag accatgcac acggccacc 
aactactac ctcttcagc ttggccatt tccgacctt 
ttgctgctg gtgtccggc ctgccccag gagatctat 
ctcatttac tcgcgctac ccttacatc ttcgggagc 
gtcttctgc ttcctgcgg gggatgttt gcggagacg 
agcgccaac gccacggtg ctgaccatc accgcgttc 
acagtcgag cgctacttg gccatttgc caccccttt 
ctctcccac accatgtcc aagctttcc agggctgtt 
aagatcatc ctggtcatc tggctggtg gccgtgggg 
ctggcagtg ccccaggcc atgcagttc gaactagtc 
ggacctaca gattgtgaa cagtgcgct tttgtgaaa 
cccatcatc cagcattcg ttcgaaatc tccactttg 
ctgttcttc gtgctgccg atgagtctc atcaccgtg 
ttgtacatt ctcattgga cagaagctg aagtcgtcc 
acgatgatg aagaagagg aatgtcttc gggaacgca 
gccacttcc agggtacac acgaaatcg tcgaggaaa 
gttgttaaa atgttagtt gctgtcgtg gtggcgttc 
tttatctgt tgggctcct ttccatgcc cagaggttg 
tacagtctc tactcaatg aagttcgaa ggactaaat 
cattccgtc tatttgaag atatacgaa attgtcaca 
tacataagt gggatcctg tattacatc tcagcgaca 
ataaatcca atcttgtac aatatcatg tctgtaaag 
tttcgtgag gcttttagg gaaacgttc tcacggtgc 
tgctgcttc taccagttc aaggccaac cgaccccaa 
agatcctat tcagttctc tccaggtcc gcccaacga 
ggtccagat tctacagac tcagggagg gatgaccct 
agtctacag tcgcacacc tccgttacc caaaaaaca 
tccctagaa tcctacaac ggagttgtg cattcggga 
ctgagaaga aataaaacc ttttcgacc ttccgtggc 
gccgacatc gaggaggag gccccagcc gacgccccc 
tggctcaaa gacatgccc gacgccaag tccacctcc 
gagcccacc acccccaag ttcatatcg attcacctc 
aacgccgcc acgccgccc cacaaaatc ggccgcttc 
tggcagtac ttcgagtgt ctggccaag aggacgttg 
gacgacagc aaacgcctc tcggcttac tacacctcc 
ccggccaga gagcccagc attctgatg gaactcaaa 
agcagcccc aagaagggc caaggccgc tgcatcagc 
ccctgcgac atcagcaac agcagtctg agggacgtt 
gaaaacggg gccatcgag gacgaactg accacttac 
atgaaggaa gtgaagcgg agggagatc tacagctag 
cagaggttg tacaacgag atcaagttg gcgaaaagg 
gaattatga ttttttgga aaaattcta aatgtttcg 
taggtgttt taatgtgat aagtgtttt agatgacac 
aacgagccc aattttttt atatacata catagatgc 
ttgcacacc tactgtcac ttgattttt tccaattta 
ccacattct tgccgcatt tggtgctca tgttattct 
agtcaatat tgttacttg cgttaggtt aaacagtta 
aacattgtt gagtctgta aataattgt agatcgagt 
gttacttct ttgttgaat taataaaaa acgagtatt 
tttcatttg tatgatgac gtattttaa tgtgataat 
atttgtata attgtatac tttaataaa gtgttgatt 
acaaa

    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