Status
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Gene information
General information
TC011249 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: 638813..648293
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
    		TC011249
    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
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    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_01831

    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: 70.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 7 (11 dpi)
    Days post injection

    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
    • >TC011249 RA
      MYRRSNSSS QLPVPNRSR SKSSVSRVS AKDDNAKRF 
RANSMDRTL NPPLKRSTS SSNLRRPSV TPSVSYKKS 
TVITPTLNS GLKRSNSNL TTPRSRSKS PYKIGSAIN 
DKKWVSDQY AKVLRFLRE HPNCPEHLP NTIKPPTIN 
SFVAVFNLL FKEIDPRFE VNTTNYKDI VLNTLKIYQ 
FPGNISLSL LKTVNTMHA WPQVMGILG WLVDLVTYI 
TQTNVNSAL EQDPKYQKV ECVTNYVLE RYQLYNNND 
DQEIADQAV SQELVKVLD IDDAETKRQ QEEVIKLEQ 
LKELRLEQI NEQKNKNEM LDKEITQLQ EETESFYQD 
REQREEASR ASIESLRER KEKLVTLIK MKCESVESL 
KVEIKNQPC AIEERNKIL EHIEAMKRK IDLKKEKIK 
TQKNIELTC HSKLKEAKN KVENEVYRL NNSLMKLTV 
VKPELKLLH LDESCDFSS AEFRKKVQN LPAKIKSCE 
TMISDEITS QKTSIAKMK TEISTLEEH ILSNKQLIE 
TLTEKEISL KNQIRSLNE HLEEMVKQR KEEEALFKE 
KMKKMEQSA PPLVEIKQN IEQLKKIKQ EKEEEHEKH 
KYQALEFFT KLESDVSNY VEKMNAKRN QVLDQLATC 
LQQTATVQQ SIIDDMLTL EEIKKS
    CDS sequence
    • >TC011249 RA
      atgtaccga cggtcaaac agcagctcc caacttcca 
gtccccaat aggtcacgc tcaaagtct tctgtcagc 
agagttagt gcaaaagat gacaatgca aaaaggttc 
agggcgaat tccatggac cgaacctta aatccgccc 
ttgaaaaga tcaacaagt tcgtcaaat ttgagaaga 
ccttcggtt actccatca gtttcttat aaaaaatca 
acggtcatt actccgact ctgaattct gggttaaaa 
cgatcaaat tctaacctc acaacacct cgctcgcgc 
agcaaatcc ccctacaag atcggttca gcaataaat 
gacaaaaag tgggtttcg gaccaatat gccaaagtc 
ttgcgattt ctcagagaa caccccaat tgccctgaa 
caccttccc aacaccatt aaaccacca accattaat 
tcatttgtg gccgttttc aacctccta ttcaaagaa 
atcgatccg cgctttgaa gtcaacaca actaactac 
aaagatatt gtcttgaac acactcaaa atttatcaa 
tttccaggg aacatttcg ctttcattg ctaaaaact 
gttaataca atgcatgct tggccacaa gtgatgggt 
attcttggg tggcttgtt gatcttgtt acttacata 
acacagaca aatgtaaat tcagctcta gaacaagat 
cccaaatat caaaaagtt gagtgtgtt actaattat 
gttcttgaa cgataccag ttgtacaac aataatgac 
gatcaggaa attgcagat caagcagtt agtcaagaa 
cttgtaaaa gttcttgat attgatgat gcggaaact 
aaaaggcag caagaagaa gtaatcaag ttagaacag 
ttgaaagag ctacgtttg gagcaaata aatgaacaa 
aaaaacaaa aatgagatg cttgacaaa gagattaca 
caactacaa gaagaaact gaatcgttc tatcaagat 
agagaacaa agggaagaa gccagtagg gcttcaatt 
gaatcatta agagaacga aaggagaaa ttagttact 
ttaataaaa atgaaatgc gaaagcgtc gagtcacta 
aaagtggag attaaaaat caaccgtgc gcaatcgaa 
gaaaggaac aaaattttg gaacacatc gaagcgatg 
aagcgcaaa attgacttg aagaaagag aagatcaaa 
acccagaaa aacattgaa cttacgtgt cattccaaa 
ttgaaggaa gccaaaaat aaagttgaa aatgaagtt 
taccgcttg aataacagc ttaatgaaa ctcactgtg 
gtcaaaccg gagcttaaa cttctacac ttggatgag 
agttgcgat ttttcttcg gccgaattt cgaaagaaa 
gtgcaaaac ctcccggct aaaataaag tcgtgtgaa 
acgatgatc agcgacgag ataacgtcc caaaaaact 
tcaattgcg aaaatgaaa accgaaatt tctacattg 
gaagaacac attttatcg aacaagcaa ttgattgag 
acgttgact gagaaggag atttcgctt aagaaccaa 
attcggtct ctgaacgaa catttggaa gagatggtt 
aagcaacga aaggaggag gaagcactt ttcaaagaa 
aaaatgaag aagatggag caaagtgct ccaccactt 
gtcgagata aaacagaat attgagcaa ctcaaaaaa 
attaaacaa gagaaagaa gaggaacat gagaagcat 
aaatatcaa gcgcttgag ttttttact aaattggag 
agtgacgtt tcgaactac gttgaaaaa atgaatgct 
aaacgaaat caagttctc gatcagctt gcaacatgt 
ttgcagcag acggcaaca gtacaacag agcataatt 
gatgatatg ctaacacta gaagaaata aaaaagtca 
taa
    mRNA sequence
    • >TC011249 RA
      tggtgattt tgtaataac gttttttga acttgatgt 
ttgtacact tcagtcagt tttatgatt taattgtgt 
ttttaataa gttgagaag tcttttgaa caatgtacc 
gacggtcaa acagcagct cccaacttc cagtcccca 
ataggtcac gctcaaagt cttctgtca gcagagtta 
gtgcaaaag atgacaatg caaaaaggt tcagggcga 
attccatgg accgaacct taaatccgc ccttgaaaa 
gatcaacaa gttcgtcaa atttgagaa gaccttcgg 
ttactccat cagtttctt ataaaaaat caacggtca 
ttactccga ctctgaatt ctgggttaa aacgatcaa 
attctaacc tcacaacac ctcgctcgc gcagcaaat 
ccccctaca agatcggtt cagcaataa atgacaaaa 
agtgggttt cggaccaat atgccaaag tcttgcgat 
ttctcagag aacacccca attgccctg aacaccttc 
ccaacacca ttaaaccac caaccatta attcatttg 
tggccgttt tcaacctcc tattcaaag aaatcgatc 
cgcgctttg aagtcaaca caactaact acaaagata 
ttgtcttga acacactca aaatttatc aatttccag 
ggaacattt cgctttcat tgctaaaaa ctgttaata 
caatgcatg cttggccac aagtgatgg gtattcttg 
ggtggcttg ttgatcttg ttacttaca taacacaga 
caaatgtaa attcagctc tagaacaag atcccaaat 
atcaaaaag ttgagtgtg ttactaatt atgttcttg 
aacgatacc agttgtaca acaataatg acgatcagg 
aaattgcag atcaagcag ttagtcaag aacttgtaa 
aagttcttg atattgatg atgcggaaa ctaaaaggc 
agcaagaag aagtaatca agttagaac agttgaaag 
agctacgtt tggagcaaa taaatgaac aaaaaaaca 
aaaatgaga tgcttgaca aagagatta cacaactac 
aagaagaaa ctgaatcgt tctatcaag atagagaac 
aaagggaag aagccagta gggcttcaa ttgaatcat 
taagagaac gaaaggaga aattagtta ctttaataa 
aaatgaaat gcgaaagcg tcgagtcac taaaagtgg 
agattaaaa atcaaccgt gcgcaatcg aagaaagga 
acaaaattt tggaacaca tcgaagcga tgaagcgca 
aaattgact tgaagaaag agaagatca aaacccaga 
aaaacattg aacttacgt gtcattcca aattgaagg 
aagccaaaa ataaagttg aaaatgaag tttaccgct 
tgaataaca gcttaatga aactcactg tggtcaaac 
cggagctta aacttctac acttggatg agagttgcg 
atttttctt cggccgaat ttcgaaaga aagtgcaaa 
acctcccgg ctaaaataa agtcgtgtg aaacgatga 
tcagcgacg agataacgt cccaaaaaa cttcaattg 
cgaaaatga aaaccgaaa tttctacat tggaagaac 
acattttat cgaacaagc aattgattg agacgttga 
ctgagaagg agatttcgc ttaagaacc aaattcggt 
ctctgaacg aacatttgg aagagatgg ttaagcaac 
gaaaggagg aggaagcac ttttcaaag aaaaaatga 
agaagatgg agcaaagtg ctccaccac ttgtcgaga 
taaaacaga atattgagc aactcaaaa aaattaaac 
aagagaaag aagaggaac atgagaagc ataaatatc 
aagcgcttg agtttttta ctaaattgg agagtgacg 
tttcgaact acgttgaaa aaatgaatg ctaaacgaa 
atcaagttc tcgatcagc ttgcaacat gtttgcagc 
agacggcaa cagtacaac agagcataa ttgatgata 
tgctaacac tagaagaaa taaaaaagt cataaagta 
acactaggt gaaatattt aataggttt gtactttcc 
attcaattg ttcttatat gtgttaata aaatgtttt 
tgctgct

    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