Status
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Gene information
General information
TC002889 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: 7234479..7239021
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
    		TC002889
    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 *
    {{ blurReferenceResult }}
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06951

    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: 50.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (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: < 20
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    labium distalbent - Penetrance (percentage of animals/eggs on slide): less than 30%

    maxillary palp orientation irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - 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: % (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
    • >TC002889 RA
      MAAIDPSRY NELCRLCAA TTTMILAVH IFQNDGIIS 
QLRKKIESC LSIQVHESD ELPKMVCEN CIYKLNLLA 
EFKEKTILT ERVLIDLLK QINSSKQSM GVVPMEHEL 
IMTQNQQLL ANHGMGGVD EIDLAHLGP REQLIVGHE 
IILTHQSVD INGHPLENI NLNHHELNQ DISNHSLQT 
QDSILVENG SARFASDNL DLIPHQQLL NEQFRLQHE 
LHVNMSAEN TVDGITLSG GLDNTVVHS KIQHDENTY 
HIHNEKDSL DYHSNSENL SVKLESPKL EDSNSNNSL 
LIDERLNHV NESDNQIFL AETANICDQ YQNQKEDSY 
EVHYETQFL KCNICFAVF PNNEVLNAH RKEAHGSTE 
EVKEIKTRL KRATLPIKN KNPDSNSDD SGGDFADDP 
EQTEEDENE DNLQIAVPE KGTSKKKIW SPKVCTECG 
KSYKTNYKL NEHMRKHTG EKPYKCNDC EKEFRSKIG 
LAQHAAKHT GKYDYACSI CGKGFQCKS YLMVHQRVH 
SDEKPYPCL TCGRNFKTK QSLLDHTNR HLGVKPYTC 
ETCGRGFIT KGLCKAHQK VHTGLDNRK YSCKVCNKM 
FVSKSYLQT HLRIHTGEK PFICEVCGK GFLTKVDLR 
IHTTMHTGE KSYVCEMCG KAFARRDAL RCHRRSHTG 
ERPYSCDLC GQTFTQFTP MAIHKRLHT GERPYACES 
CGKTFVSRS TMMSHAKKH R
    CDS sequence
    • >TC002889 RA
      atggccgca atcgaccct tcccgatat aacgagctg 
tgcagactt tgtgccgca acaacgacg atgattctg 
gcggttcac atatttcaa aacgacgga ataataagc 
caattgcgg aaaaaaatc gaatcttgc ctttccatt 
caagtgcac gaatccgac gagcttccc aagatggtg 
tgcgagaac tgcatctat aagctcaac ttgttggcg 
gagtttaag gagaagacg attctcacg gagagggtg 
ttgatagat ttgttgaag cagatcaat tccagcaag 
cagagcatg ggggttgtg cccatggag cacgagctg 
atcatgacg cagaaccag cagctcttg gccaaccat 
ggcatgggt ggggttgat gagattgat ttggctcac 
ttggggccc agggagcag ctgattgtg ggacatgag 
atcatttta acccatcag agtgttgat atcaatggt 
caccctctt gaaaacatt aatttgaac caccatgag 
ttgaaccag gacatttct aaccatagt ttgcaaacg 
caggactca attttggtg gagaatggc agtgcgagg 
tttgccagt gataattta gatttaatt ccgcatcag 
cagttgttg aatgagcag tttcggttg caacacgag 
ttgcatgtt aatatgagc gctgaaaat accgttgat 
gggattact ttaagtggg ggtttggat aatactgtg 
gttcactca aagatacaa cacgatgaa aatacttat 
catattcac aatgaaaaa gacagttta gattatcat 
tcaaactct gagaattta agtgttaaa ttagaatct 
ccaaaactt gaagatagc aacagtaac aattctctg 
ttgattgat gaacgttta aatcatgtc aatgaatcg 
gataatcaa atttttttg gctgaaact gcgaatatt 
tgtgaccag tatcaaaat caaaaagag gacagttat 
gaagtgcat tacgagaca cagtttctt aagtgtaac 
atttgtttt gctgttttt cccaataat gaggtttta 
aatgcacat agaaaggag gctcatggt agtacagag 
gaagttaag gaaatcaaa acgcgatta aaaagagca 
actttaccg attaagaac aaaaacccc gacagtaac 
agcgacgat agcggcggc gactttgct gatgatcct 
gaacagact gaagaagac gaaaatgaa gataacttg 
caaatagca gtgccagag aaaggcaca agtaagaaa 
aaaatttgg tcgcctaaa gtgtgtaca gagtgtggt 
aaatcgtac aaaacaaac tacaaatta aatgaacat 
atgagaaag cacaccggg gaaaagccg tacaaatgc 
aacgattgc gagaaagaa ttccggtcg aaaataggt 
ctagcacaa catgccgcc aaacacacg ggaaaatat 
gattatgct tgttcaatt tgcggcaaa ggcttccag 
tgcaagagt tatttgatg gttcatcaa agagtgcat 
tcagacgag aaaccgtat ccgtgtttg acgtgcgga 
cggaatttt aaaacgaaa cagtcgcta ctagaccac 
acgaatagg catttagga gtgaaaccg tacacttgt 
gaaacttgc ggacggggt tttatcacg aaggggctc 
tgcaaggcg caccagaag gtgcacacg ggcttggac 
aaccggaaa tactcgtgc aaagtttgc aacaagatg 
tttgtgtcg aagagttac ttgcagacg catttgcgc 
attcataca ggcgaaaaa cccttcatt tgcgaggtt 
tgtggcaag ggttttttg acgaaggtg gatttgcga 
attcacaca acgatgcac acgggtgaa aaatcgtac 
gtttgtgag atgtgtggc aaggctttt gctcgaaga 
gacgccttg aggtgtcac aggaggtcg catacaggc 
gagaggcct tacagttgc gacttatgt ggacaaacc 
tttacccag tttacaccc atggctatc cataaacgt 
ctccatacg ggcgaaagg ccgtacgct tgtgaaagc 
tgcgggaaa actttcgta tccagatcc acgatgatg 
tctcatgcc aaaaaacac aggtag
    mRNA sequence
    • >TC002889 RA
      gcgcccacc tcagtttga cagttcttc gtgttacgt 
ctttttcac aaacgttgt tttcgtaat ttttccaat 
ccgccgtga attttcgct tttttcatg tttgttgtc 
cttccgccg catctctag ccttgttcg cgtgttggc 
gggccgtgt gggggccca gtatgtagt atttagtcg 
aaaacacga agtgtaatt tgttggaat tgttaatac 
accaaaatg gccgcaatc gacccttcc cgatataac 
gagctgtgc agactttgt gccgcaaca acgacgatg 
attctggcg gttcacata tttcaaaac gacggaata 
ataagccaa ttgcggaaa aaaatcgaa tcttgcctt 
tccattcaa gtgcacgaa tccgacgag cttcccaag 
atggtgtgc gagaactgc atctataag ctcaacttg 
ttggcggag tttaaggag aagacgatt ctcacggag 
agggtgttg atagatttg ttgaagcag atcaattcc 
agcaagcag agcatgggg gttgtgccc atggagcac 
gagctgatc atgacgcag aaccagcag ctcttggcc 
aaccatggc atgggtggg gttgatgag attgatttg 
gctcacttg gggcccagg gagcagctg attgtggga 
catgagatc attttaacc catcagagt gttgatatc 
aatggtcac cctcttgaa aacattaat ttgaaccac 
catgagttg aaccaggac atttctaac catagtttg 
caaacgcag gactcaatt ttggtggag aatggcagt 
gcgaggttt gccagtgat aatttagat ttaattccg 
catcagcag ttgttgaat gagcagttt cggttgcaa 
cacgagttg catgttaat atgagcgct gaaaatacc 
gttgatggg attacttta agtgggggt ttggataat 
actgtggtt cactcaaag atacaacac gatgaaaat 
acttatcat attcacaat gaaaaagac agtttagat 
tatcattca aactctgag aatttaagt gttaaatta 
gaatctcca aaacttgaa gatagcaac agtaacaat 
tctctgttg attgatgaa cgtttaaat catgtcaat 
gaatcggat aatcaaatt tttttggct gaaactgcg 
aatatttgt gaccagtat caaaatcaa aaagaggac 
agttatgaa gtgcattac gagacacag tttcttaag 
tgtaacatt tgttttgct gtttttccc aataatgag 
gttttaaat gcacataga aaggaggct catggtagt 
acagaggaa gttaaggaa atcaaaacg cgattaaaa 
agagcaact ttaccgatt aagaacaaa aaccccgac 
agtaacagc gacgatagc ggcggcgac tttgctgat 
gatcctgaa cagactgaa gaagacgaa aatgaagat 
aacttgcaa atagcagtg ccagagaaa ggcacaagt 
aagaaaaaa atttggtcg cctaaagtg tgtacagag 
tgtggtaaa tcgtacaaa acaaactac aaattaaat 
gaacatatg agaaagcac accggggaa aagccgtac 
aaatgcaac gattgcgag aaagaattc cggtcgaaa 
ataggtcta gcacaacat gccgccaaa cacacggga 
aaatatgat tatgcttgt tcaatttgc ggcaaaggc 
ttccagtgc aagagttat ttgatggtt catcaaaga 
gtgcattca gacgagaaa ccgtatccg tgtttgacg 
tgcggacgg aattttaaa acgaaacag tcgctacta 
gaccacacg aataggcat ttaggagtg aaaccgtac 
acttgtgaa acttgcgga cggggtttt atcacgaag 
gggctctgc aaggcgcac cagaaggtg cacacgggc 
ttggacaac cggaaatac tcgtgcaaa gtttgcaac 
aagatgttt gtgtcgaag agttacttg cagacgcat 
ttgcgcatt catacaggc gaaaaaccc ttcatttgc 
gaggtttgt ggcaagggt tttttgacg aaggtggat 
ttgcgaatt cacacaacg atgcacacg ggtgaaaaa 
tcgtacgtt tgtgagatg tgtggcaag gcttttgct 
cgaagagac gccttgagg tgtcacagg aggtcgcat 
acaggcgag aggccttac agttgcgac ttatgtgga 
caaaccttt acccagttt acacccatg gctatccat 
aaacgtctc catacgggc gaaaggccg tacgcttgt 
gaaagctgc gggaaaact ttcgtatcc agatccacg 
atgatgtct catgccaaa aaacacagg tagaagcgt 
caatctcaa tcgtaaaag actgtctat ttattgtgc 
tgtatttta tcatttaca actttactt ttctttgga 
tctacaata cacttgcga ttaatttgt agtgtcatt 
ttttacgta aatcatcga ataaacgat tttgtaagt 
g

    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