Status
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Gene information
General information
TC010172 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_007422.5: 13643089..13645241
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
    		TC010172
    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_04777

    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)

    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection

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

    Fertility
    egg chamber not present - Number of animals showing the phenotype: 4

    tropharium shortened - Number of animals showing the phenotype: 4

    vitellarium shortened - Number of animals showing the phenotype: 4
    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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 90.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (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
    • >TC010172 RA
      MVKSPAVGI DLGTTYSCV GVWQHGKVE IIANDQGNR 
TTPSYVAFT DTERLLGDA AKNQVAMNP SNTIFDAKR 
LIGRKFDDP KIQQDIKHW PFKVINDCG KPKIQVEHK 
GEIKKFAPE EISSMVLTK MKETAEAYL GTSVRDAVI 
TVPAYFNDS QRQATKDAG VIAGLNVMR IINEPTAAA 
LAYGLDKNL KGERNVLIF DLGGGTFDV SILTIDEGS 
LFEVKATAG DTHLGGEDF DNRLVNHLA DEFKRKYKK 
DLRSNPRAL RRLRTAAER AKRTLSSST EASIEIDAL 
FDGIDFYTK ISRARFEEM NADLFRGTL QPVEKALTD 
AKMDKGMIH DIVLVGGST RIPKIQQLL QNYFNGKPL 
NLSINPDEA VAYGAAVQA AVLSGETDS KIQDVLLVD 
VTPLSLGIE TAGGVMTKI IERNARIPC KQTQTFTTY 
ADNQPAVTI QVFEGERAM TKDNNLLGT FDLTGIPPA 
PRGVPKIEV TFDLDANGI LNVSAKDTS SGNSRNITI 
KNDKGRLSQ KDIDRMVAE AEQYKEEDE KQRQRIAAR 
NQLEGYIFQ LKQTISEQG SKLSEADKE TVTRECDSC 
LQWLDANTL AEKEEYEDK QKQLSSICA PIMAKLYQQ 
GGQGGMPGA GGSCGQQAG GFGGQRQGG PTIEEVD
    CDS sequence
    • >TC010172 RA
      atggtgaaa tctccagca gttggtatc gacttggga 
accacctac tcctgcgtg ggagtctgg cagcatgga 
aaagtcgag atcatcgcc aacgaccaa ggtaacaga 
accacccca agttatgtt gccttcacc gacaccgag 
cgtcttctc ggcgacgct gcgaagaac caagttgcc 
atgaacccc agcaacacc atcttcgac gcgaaacga 
ttaattgga aggaaattc gacgacccg aagatccag 
caagatatc aaacactgg ccgtttaaa gttatcaat 
gactgcggc aaacccaag atccaagtc gagcacaaa 
ggcgaaatt aagaagttt gcaccggag gagatcagt 
tcgatggtg ctgacgaaa atgaaggaa accgctgaa 
gcgtatttg ggaacatct gtaagggat gctgttatc 
acagtcccg gcatatttc aacgactcc cagaggcaa 
gctacgaaa gatgccggt gttatcgcc ggtttgaac 
gtcatgagg atcatcaat gaaccgaca gcagcggct 
ttggcttat gggcttgac aagaatttg aagggcgaa 
cgaaacgtc cttattttc gacctgggt ggcggcact 
ttcgatgtt tccatctta accatcgac gaagggtcg 
ttgttcgaa gttaaagcc actgcaggt gacacccac 
ctgggtggt gaagacttc gacaaccgc cttgttaac 
cacttggcc gacgaattc aaacgcaaa tacaagaaa 
gatctgaga agcaatccg agggcttta cggcgattg 
agaaccgcc gctgaaaga gcgaagcga accttgtct 
tcaagcacc gaagcatcg attgaaatc gacgccctc 
ttcgacgga atcgacttc tacaccaag atcagtcga 
gcaaggttc gaagaaatg aacgccgat ttgttcagg 
gggacacta caacctgtc gagaaagcc ctgaccgac 
gctaaaatg gacaaggga atgatccac gacatcgtc 
ctcgtcggc ggctccacc cgaatcccg aaaatccaa 
caactgctc cagaactat ttcaacgga aaaccactg 
aatctctca attaaccct gacgaagcc gtcgcctac 
ggtgccgcc gtccaagcg gctgtcttg agcggtgaa 
accgattcg aagatccag gacgtgctc ctcgtagac 
gtgactccc ctatcacta ggtatcgaa accgccgga 
ggcgtgatg acgaagatc atcgaacgc aacgcaaga 
atcccatgc aagcaaacg caaaccttc acaacttac 
gccgacaac caaccggcc gtcaccatc caagtcttc 
gagggtgaa agagccatg acaaaagac aacaacctt 
ttgggaacc ttcgattta acgggaatt ccaccagca 
ccacgtgga gtcccgaaa atcgaagtc actttcgac 
ctggacgcc aacggcatc ctgaacgtc tccgctaaa 
gacaccagc tccggtaat tcacgcaat attaccatc 
aagaacgac aaaggaaga ttatcacag aaagacatc 
gataggatg gtggcagag gctgaacaa tataaagag 
gaggatgag aagcagaga cagagaatt gcggccagg 
aatcaatta gagggttac atcttccaa ttgaaacag 
actatttcc gaacaaggg agcaaatta agcgaagct 
gacaaagaa actgtaacg agggaatgt gacagctgc 
ttgcagtgg ttggatgcc aacactctg gccgagaag 
gaggaatat gaagataaa cagaaacaa ttatcgtcc 
atctgtgct ccaattatg gctaaattg taccaacaa 
ggcggtcag ggaggtatg cctggggct ggaggaagc 
tgtggacaa caggccggc ggctttgga ggtcaacga 
caaggagga ccaacaatt gaagaagtt gattaa
    mRNA sequence
    • >TC010172 RA
      tttgaattc aagcgattg aacaagcaa gtcaagcaa 
gcgaagcta acaaagcgt tttctacaa agtgtttac 
aagtgaatt tgaatcgaa gcaaagcaa atcagagaa 
aatggtgaa atctccagc agttggtat cgacttggg 
aaccaccta ctcctgcgt gggagtctg gcagcatgg 
aaaagtcga gatcatcgc caacgacca aggtaacag 
aaccacccc aagttatgt tgccttcac cgacaccga 
gcgtcttct cggcgacgc tgcgaagaa ccaagttgc 
catgaaccc cagcaacac catcttcga cgcgaaacg 
attaattgg aaggaaatt cgacgaccc gaagatcca 
gcaagatat caaacactg gccgtttaa agttatcaa 
tgactgcgg caaacccaa gatccaagt cgagcacaa 
aggcgaaat taagaagtt tgcaccgga ggagatcag 
ttcgatggt gctgacgaa aatgaagga aaccgctga 
agcgtattt gggaacatc tgtaaggga tgctgttat 
cacagtccc ggcatattt caacgactc ccagaggca 
agctacgaa agatgccgg tgttatcgc cggtttgaa 
cgtcatgag gatcatcaa tgaaccgac agcagcggc 
tttggctta tgggcttga caagaattt gaagggcga 
acgaaacgt ccttatttt cgacctggg tggcggcac 
tttcgatgt ttccatctt aaccatcga cgaagggtc 
gttgttcga agttaaagc cactgcagg tgacaccca 
cctgggtgg tgaagactt cgacaaccg ccttgttaa 
ccacttggc cgacgaatt caaacgcaa atacaagaa 
agatctgag aagcaatcc gagggcttt acggcgatt 
gagaaccgc cgctgaaag agcgaagcg aaccttgtc 
ttcaagcac cgaagcatc gattgaaat cgacgccct 
cttcgacgg aatcgactt ctacaccaa gatcagtcg 
agcaaggtt cgaagaaat gaacgccga tttgttcag 
ggggacact acaacctgt cgagaaagc cctgaccga 
cgctaaaat ggacaaggg aatgatcca cgacatcgt 
cctcgtcgg cggctccac ccgaatccc gaaaatcca 
acaactgct ccagaacta tttcaacgg aaaaccact 
gaatctctc aattaaccc tgacgaagc cgtcgccta 
cggtgccgc cgtccaagc ggctgtctt gagcggtga 
aaccgattc gaagatcca ggacgtgct cctcgtaga 
cgtgactcc cctatcact aggtatcga aaccgccgg 
aggcgtgat gacgaagat catcgaacg caacgcaag 
aatcccatg caagcaaac gcaaacctt cacaactta 
cgccgacaa ccaaccggc cgtcaccat ccaagtctt 
cgagggtga aagagccat gacaaaaga caacaacct 
tttgggaac cttcgattt aacgggaat tccaccagc 
accacgtgg agtcccgaa aatcgaagt cactttcga 
cctggacgc caacggcat cctgaacgt ctccgctaa 
agacaccag ctccggtaa ttcacgcaa tattaccat 
caagaacga caaaggaag attatcaca gaaagacat 
cgataggat ggtggcaga ggctgaaca atataaaga 
ggaggatga gaagcagag acagagaat tgcggccag 
gaatcaatt agagggtta catcttcca attgaaaca 
gactatttc cgaacaagg gagcaaatt aagcgaagc 
tgacaaaga aactgtaac gagggaatg tgacagctg 
cttgcagtg gttggatgc caacactct ggccgagaa 
ggaggaata tgaagataa acagaaaca attatcgtc 
catctgtgc tccaattat ggctaaatt gtaccaaca 
aggcggtca gggaggtat gcctggggc tggaggaag 
ctgtggaca acaggccgg cggctttgg aggtcaacg 
acaaggagg accaacaat tgaagaagt tgattaagc 
attccttaa gaattttaa ctttaattt ctcttaaaa 
acctttttt ttctaatag tattatgtt aaatgcagt 
cactattga aataatgtg atattgtta tg

    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