Status
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Gene information
General information
TC011826 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_007424.3: 13079447..13087587
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
    		TC011826
    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
    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_07682

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    head appendages random not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: Antenna is the most sensitive part
    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - 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: % (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
    • >TC011826 RA
      MEGASKQPD EEIALKPKM TLVNGITVI VGSIIGSGI 
FVSPAGVLM HTGSVNVSL LVWTISGIF SMVGAYCYA 
ELGTMIRKS GADYAYIME TFGPFLAFI RLWIECMIV 
RPCSQAIVA LTFSVYVMK PFFPECQPP EDAARLLAV 
CCICVLTFV NCYDVKWAT RVQDVFTYA KLLALFIII 
AAGGYQLVN GHTEHFSFI NTKSEVTSL ALSFYSGLF 
AYNGWNYLN FIIEELKDP VRNLPLAIA ISCSLVTIV 
YVLTNVAFY TTLSPAELL GSEAVAVSF ANRLFGPFA 
WTIPVFVAL STFGAVNGI LLTSSRLFY SGACHGQMP 
EILTMIQAQ RVTPTPSVL IMALLSMLY LTVSDIFAL 
INYVGFATW LSIGVSVLC VPWLRWTHP DLERPIKVN 
LIWPIIYLL ATVFVTAVP MVASPVETG IGMLMILTS 
VPVYLVFIY WKNKPLWFL KATNSITIT LQQLLVVVG 
KAKAANL
    CDS sequence
    • >TC011826 RA
      atggagggt gccagcaag cagcccgac gaggagatc 
gccctcaag cccaagatg accctcgtc aacggcatc 
accgtcatc gtgggctcc atcatcggc tccgggatc 
ttcgtgtcg ccggcgggc gtcctcatg cacaccggc 
agcgtcaac gtctccctc ctggtgtgg accatttcg 
gggattttt tccatggtc ggcgcctac tgctacgcc 
gaacttggc accatgatc aggaaaagc ggcgctgat 
tacgcctac atcatggaa accttcggc cctttcctt 
gccttcatc cgcctatgg atcgaatgc atgatagta 
cggccgtgt tctcaagca atagtagcc ttaactttc 
agtgtttac gtgatgaaa cccttcttc cctgaatgc 
caaccacct gaagacgcc gcacgtttg ctcgccgtt 
tgttgcatc tgtgtttta acgttcgtt aactgctac 
gacgtgaag tgggcgact cgcgtccag gacgtcttc 
acctacgcc aaactcctg gccctgttc atcatcata 
gcggcagga gggtatcag ctggtcaac gggcacacg 
gagcacttt tcattcatc aacacaaag agcgaagtt 
acgtcgctg gcattatca ttctattcc ggcttgttc 
gcctacaat ggctggaat tacctgaac tttattatc 
gaggaactc aaggatcca gtcagaaat ctcccgctt 
gctatcgca atttcgtgt tctttggta acaatcgtc 
tacgttttg accaacgtg gcgttctac acaacgctt 
tcacccgcc gagcttttg gggtctgaa gcagtggcg 
gtgtcgttc gccaatcga ctttttggt cctttcgcg 
tggacgatt cctgttttt gtggccctg tcgacgttt 
ggggccgtt aatggtatt ttactgaca tcgtcacga 
ctgttctat tcgggggct tgccatgga caaatgccc 
gaaattctg accatgatt caggcgcag agggtcacc 
cccacaccc tcggtgctc attatggcg ctgttatcg 
atgctctat ctcacagta tcagacatt ttcgcttta 
ataaactac gtcggcttc gccacatgg ctgagcatt 
ggggtgtcc gtgctgtgc gtcccctgg ctgcgctgg 
acgcacccg gacctggag cgccccatc aaagtgaac 
ttaatctgg cccatcatc tacttactc gccaccgtt 
ttcgtaaca gccgtgccc atggtcgcc agtcctgtc 
gaaaccggc atcggcatg ctgatgatt ttgacatcg 
gtaccagtt tatttggta tttatttat tggaagaac 
aagccgctg tggttcctt aaggccacc aacagcata 
accatcacg ctccagcag ctgctggtg gtggtgggc 
aaagccaaa gcggccaac ttgtag
    mRNA sequence
    • >TC011826 RA
      aatggtttt gttaaaaaa acttagtct tagacttag 
cgcaccaaa tgactaaat tgccacttc ctcaaataa 
tctcgtcgc attttcgtc gacaaaacc cactcactc 
caccacact caagtcaaa gtttgaaaa atcgagata 
acacccgtg aggtcgcct cacttcttg ttttatctc 
gcatgtttt ggtaaacat cgtttcata acgttcgaa 
ttttcgaaa tgtccacgc gacgttgct ttagggcat 
agtagggag cgaatggtc cagatattg atcgttctc 
ctcctgcga gtgagtcgc taagacgcg gggttggcg 
cacacacaa ccaagctct cggccatgg agggtgcca 
gcaagcagc ccgacgagg agatcgccc tcaagccca 
agatgaccc tcgtcaacg gcatcaccg tcatcgtgg 
gctccatca tcggctccg ggatcttcg tgtcgccgg 
cgggcgtcc tcatgcaca ccggcagcg tcaacgtct 
ccctcctgg tgtggacca tttcgggga ttttttcca 
tggtcggcg cctactgct acgccgaac ttggcacca 
tgatcagga aaagcggcg ctgattacg cctacatca 
tggaaacct tcggccctt tccttgcct tcatccgcc 
tatggatcg aatgcatga tagtacggc cgtgttctc 
aagcaatag tagccttaa ctttcagtg tttacgtga 
tgaaaccct tcttccctg aatgccaac cacctgaag 
acgccgcac gtttgctcg ccgtttgtt gcatctgtg 
ttttaacgt tcgttaact gctacgacg tgaagtggg 
cgactcgcg tccaggacg tcttcacct acgccaaac 
tcctggccc tgttcatca tcatagcgg caggagggt 
atcagctgg tcaacgggc acacggagc acttttcat 
tcatcaaca caaagagcg aagttacgt cgctggcat 
tatcattct attccggct tgttcgcct acaatggct 
ggaattacc tgaacttta ttatcgagg aactcaagg 
atccagtca gaaatctcc cgcttgcta tcgcaattt 
cgtgttctt tggtaacaa tcgtctacg ttttgacca 
acgtggcgt tctacacaa cgctttcac ccgccgagc 
ttttggggt ctgaagcag tggcggtgt cgttcgcca 
atcgacttt ttggtcctt tcgcgtgga cgattcctg 
tttttgtgg ccctgtcga cgtttgggg ccgttaatg 
gtattttac tgacatcgt cacgactgt tctattcgg 
gggcttgcc atggacaaa tgcccgaaa ttctgacca 
tgattcagg cgcagaggg tcaccccca caccctcgg 
tgctcatta tggcgctgt tatcgatgc tctatctca 
cagtatcag acattttcg ctttaataa actacgtcg 
gcttcgcca catggctga gcattgggg tgtccgtgc 
tgtgcgtcc cctggctgc gctggacgc acccggacc 
tggagcgcc ccatcaaag tgaacttaa tctggccca 
tcatctact tactcgcca ccgttttcg taacagccg 
tgcccatgg tcgccagtc ctgtcgaaa ccggcatcg 
gcatgctga tgattttga catcggtac cagtttatt 
tggtattta tttattgga agaacaagc cgctgtggt 
tccttaagg ccaccaaca gcataacca tcacgctcc 
agcagctgc tggtggtgg tgggcaaag ccaaagcgg 
ccaacttgt aggtagtga gtgcgaaag accaaagat 
tacttatgc ctacatcga caataaatg tttgtatgc 
atggaaaat aaactatgt tacgattta cgcggtttt 
taacttgaa ccacggaga actatgtgc taggaagcg 
aaataaggt acaaaaatg tccccgacg acagattct 
attgttttt ttttatttg atagcgcag ttgttccgc 
tactatgaa aaaaataaa aattgaaaa aactg

    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