Status
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Gene information
General information
TC003257 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: 460761..464464
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
    		TC003257
    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_00542

    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)

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): less than 30%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     larva cuticle duplicated - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 10.0% (includes death as larva, prepupa, pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - 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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003257 RA
      MSLSASAEN LTVETQDYD GSSNMCLEL ALEGERLCK 
AGDCRAGVA FFQAAIQAG TDDLRTLSA IYSQLGNAY 
FYLGDYGKA MQYHKHDLT LARTMGDKL GEAKSSGNL 
GNTLKVMGR FDEAVVCCK RHLELSREL GDRLSEGRA 
LYNLGNVFH AKGKHIGRV GHKDPGDFS DDVKGCLQE 
AVSYYEENL TLMRELGDI AAQGRACGN LGNTFYLLG 
DFAQAIHYH EERLSIARQ FGDKAAERR AHSNLGNSH 
IFMGQFEEA AHHYKRTLA LAQELGDHA VEAQACYSL 
GNTYTLLRD YETAIEYHL RHLLIAQNL ADRIGEGRA 
CWSLGNANA SLGNHEKAL QFAKKHLEI SKELGDPMG 
EATAKMNIA DLRKILNLP DSPESCDSD SPKENDVTH 
QRIQRVRRE SMEQLSLIK LTPDGKQRP GFTLPPMKS 
APSPTKNED DDSFFDLLS RFQSKRMDD QRCSLTVDN 
NKENTNVVN LPRNEGPDD LIDMIAGMQ SKRMDEQRV 
ALPHLPGLQ SSSLQKLAE SRNNSVPDD NFLDQLVRC 
QGSRLEDQR SPLPMPAVD VEADPPPAR KSGATVPDE 
DFISLIMRF QSGRMDDQR AAVPRVEHR MANGNVPHA 
TNGISNNFK SNSSGKKKK
    CDS sequence
    • >TC003257 RA
      atgtccctg agtgctagt gccgagaac ctgactgtg 
gaaacacag gactatgac ggttcgagc aatatgtgc 
ttagagttg gccttggag ggcgagcgt ctgtgcaag 
gcgggcgac tgcagggca ggagtggct ttttttcag 
gccgcaatc caggccgga actgacgac ttgcggacg 
ctcagtgct atttacagt cagctcgga aatgcgtat 
ttttatcta ggagattat ggcaaagcc atgcaatat 
cacaaacat gatctcact ttggccagg acaatgggt 
gataaactg ggcgaggcg aagtcttcg ggaaatctg 
ggcaatact ctgaaggtg atggggcgg tttgatgaa 
gctgtggtg tgttgtaaa cgacatttg gagctttcg 
agagaattg ggcgatagg ttgagcgaa ggcagggcg 
ttgtataat ttaggaaat gtttttcat gccaagggg 
aaacatatc gggagggtg gggcacaag gatccgggg 
gatttttca gatgacgtc aaagggtgt ctccaagaa 
gctgtctct tattatgag gaaaactta acactgatg 
cgtgaactg ggcgatata gcggcacaa ggaagagct 
tgtggtaat ttgggcaat acgttttat ttattgggt 
gatttcgcg caagcgata cattaccat gaagaaaga 
ttatcaata gcgagacaa tttggtgat aaagcggcc 
gaaagaaga gcacatagt aatctcgga aattcgcat 
atttttatg ggacagttt gaagaagcc gcccatcat 
tacaaacga actctagcc ctggcccag gaattaggc 
gaccatgca gtcgaagct caggcttgt tatagttta 
ggcaacact tatacgcta ttgagagat tacgaaact 
gccattgaa tatcatttg agacatctt ttgatagcg 
caaaatttg gccgatcgc attggggaa ggtagggcg 
tgttggtca ttgggtaat gcaaacgca tcgttgggt 
aatcacgaa aaggcgcta caatttgcc aaaaaacac 
ctcgaaatt agtaaagag ttgggcgat ccaatgggt 
gaagctaca gcgaaaatg aacattgct gacttacga 
aaaatcctc aatttgcct gatagtccc gaatcgtgt 
gacagtgat tccccgaaa gagaatgac gtcactcac 
cagaggata caaagggtg agacgtgaa agcatggaa 
cagcttagc ctgattaag ttgacaccc gacggcaaa 
caacgtccc ggcttcaca cttccacca atgaaatca 
gccccgtca ccaactaaa aacgaagat gacgattcc 
ttcttcgat ttgttatcc cgcttccaa tcgaaacgt 
atggacgac caacgttgt tccctcact gttgacaac 
aacaaggaa aacaccaac gtggtgaat ctgcctcga 
aatgaaggt cccgatgat ctgattgac atgattgcc 
ggaatgcaa agcaaaaga atggatgag caaagagtt 
gcactacca catcttcca ggattgcaa tcatcgtcg 
ttacaaaag ttggccgaa tcgaggaat aatagtgtt 
cccgatgat aatttcctg gatcagttg gtgcgttgt 
caaggttca agacttgag gatcagaga tcgccgctc 
ccgatgccg gcggttgat gtggaggcc gatccgcca 
ccggcaagg aaaagtggg gcgactgtg ccagatgag 
gattttatc tcgttgatt atgaggttt cagtcgggg 
agaatggat gatcaaagg gcggctgtg ccccgagtg 
gaacacaga atggccaat ggtaacgtc ccgcatgca 
acaaatggt attagtaat aattttaaa agcaattct 
tcgggcaag aagaagaag taa
    mRNA sequence
    • >TC003257 RA
      tgacagttg caggaagag gagtgttgt gtgttttga 
caattgtgc gtttttatt gttgtttat ttgcgtaac 
aatgaaaga atgagcggg tgattcata cctcaagtg 
cttttaatt gctttaatt aatcgaatt aacgttaaa 
aatgtccct gagtgctag tgccgagaa cctgactgt 
ggaaacaca ggactatga cggttcgag caatatgtg 
cttagagtt ggccttgga gggcgagcg tctgtgcaa 
ggcgggcga ctgcagggc aggagtggc tttttttca 
ggccgcaat ccaggccgg aactgacga cttgcggac 
gctcagtgc tatttacag tcagctcgg aaatgcgta 
tttttatct aggagatta tggcaaagc catgcaata 
tcacaaaca tgatctcac tttggccag gacaatggg 
tgataaact gggcgaggc gaagtcttc gggaaatct 
gggcaatac tctgaaggt gatggggcg gtttgatga 
agctgtggt gtgttgtaa acgacattt ggagctttc 
gagagaatt gggcgatag gttgagcga aggcagggc 
gttgtataa tttaggaaa tgtttttca tgccaaggg 
gaaacatat cgggagggt ggggcacaa ggatccggg 
ggatttttc agatgacgt caaagggtg tctccaaga 
agctgtctc ttattatga ggaaaactt aacactgat 
gcgtgaact gggcgatat agcggcaca aggaagagc 
ttgtggtaa tttgggcaa tacgtttta tttattggg 
tgatttcgc gcaagcgat acattacca tgaagaaag 
attatcaat agcgagaca atttggtga taaagcggc 
cgaaagaag agcacatag taatctcgg aaattcgca 
tatttttat gggacagtt tgaagaagc cgcccatca 
ttacaaacg aactctagc cctggccca ggaattagg 
cgaccatgc agtcgaagc tcaggcttg ttatagttt 
aggcaacac ttatacgct attgagaga ttacgaaac 
tgccattga atatcattt gagacatct tttgatagc 
gcaaaattt ggccgatcg cattgggga aggtagggc 
gtgttggtc attgggtaa tgcaaacgc atcgttggg 
taatcacga aaaggcgct acaatttgc caaaaaaca 
cctcgaaat tagtaaaga gttgggcga tccaatggg 
tgaagctac agcgaaaat gaacattgc tgacttacg 
aaaaatcct caatttgcc tgatagtcc cgaatcgtg 
tgacagtga ttccccgaa agagaatga cgtcactca 
ccagaggat acaaagggt gagacgtga aagcatgga 
acagcttag cctgattaa gttgacacc cgacggcaa 
acaacgtcc cggcttcac acttccacc aatgaaatc 
agccccgtc accaactaa aaacgaaga tgacgattc 
cttcttcga tttgttatc ccgcttcca atcgaaacg 
tatggacga ccaacgttg ttccctcac tgttgacaa 
caacaagga aaacaccaa cgtggtgaa tctgcctcg 
aaatgaagg tcccgatga tctgattga catgattgc 
cggaatgca aagcaaaag aatggatga gcaaagagt 
tgcactacc acatcttcc aggattgca atcatcgtc 
gttacaaaa gttggccga atcgaggaa taatagtgt 
tcccgatga taatttcct ggatcagtt ggtgcgttg 
tcaaggttc aagacttga ggatcagag atcgccgct 
cccgatgcc ggcggttga tgtggaggc cgatccgcc 
accggcaag gaaaagtgg ggcgactgt gccagatga 
ggattttat ctcgttgat tatgaggtt tcagtcggg 
gagaatgga tgatcaaag ggcggctgt gccccgagt 
ggaacacag aatggccaa tggtaacgt cccgcatgc 
aacaaatgg tattagtaa taattttaa aagcaattc 
ttcgggcaa gaagaagaa gtaatacga ataagttag 
agtaagtaa atttgaaaa ccccatatc tgaattttt 
tatttcgat tgactgcca ttggagcat gtacgataa 
aaagagaaa atctaacgt aaagtatat gttatttta 
taattttat atattttta tatatgttt agtaaataa 
tattgatgt atctat

    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