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Gene information
General information
TC007936 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_007419.2: 2931494..2933607
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
    		TC007936
    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
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    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
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01287

    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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 25.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 25.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007936 RA
      MPPTKNPDL QSVSAFLMY RKTSTNKEI TKKRKNLKK 
NKKSQNIKK KIEEEITKT LPLKPSRRH SHSIKKTRD 
NQPEQIKKP LPSKKVNVR HSPERDFLP SRKLNGNHN 
QDSCDESIT QSGFLPVDD PTEDAQKLF EWLIQPLSP 
ASFFKTYWE QKPLYIKRG NRSYYTHIL DSSSLDKIL 
RNNSLFFTR NVDVVTYEN GEKQVFNQE GRATPSALW 
DYYGNGCSI RVLNPQTYN HKVHLLLAT LQEYFGTMV 
GANVYLTPP GSQGFAPHY DDIEAFVVQ LEGRKHWKL 
YQPKSEDVL ARFSSPNFK REDLGEPFM ELTLNAGEL 
LYFPRGTIH EGRTDEDSH SLHITVSVY QQTSYVDLL 
EHILPKALK KAADSDVEF RKGLPLNYL KDFGLAAGS 
KNRKFVTSK IKDLMNSLI NYVDIDSAA DQLGKKFMH 
DSMPPVLTK SEAERSSKA DGPVLKDGV VKNRVEIDL 
DTRVRLLRY YCIRLVCEE NSSPKLYYN TQNATVYHG 
EEEQWLELE PSMVPLIQM LQNTYPRYI EVEKLPLDD 
MATKMQLVL DLWEHGLLV TEYPLDVIE Y
    CDS sequence
    • >TC007936 RA
      atgcctccc acaaaaaat cctgatttg caatcggtg 
tctgcgttc ttgatgtac aggaagaca tcgaccaat 
aaagaaatc accaagaaa cgcaaaaat ttaaagaaa 
aataagaaa tcacaaaat attaagaag aaaatcgaa 
gaagaaatt acaaaaacc cttcctcta aaaccaagt 
agaagacac tctcacagt attaaaaaa actcgtgac 
aatcaacca gagcaaatt aaaaaacct cttccttca 
aaaaaagtt aatgtgagg cactctcct gaacgagat 
tttcttcct tcaagaaaa ttaaatggc aatcacaat 
caagactct tgtgatgaa agcataact caaagtggg 
tttttgcca gttgatgat ccaacggaa gatgcacaa 
aagttgttc gagtggctg atacagccc ctttcccct 
gcctctttc ttcaaaacg tattgggaa cagaaaccc 
ctttacata aaacggggg aacaggtcg tactacacc 
cacatttta gattcaagc agtttggac aaaatcctt 
cgaaacaat agtttattt tttacacga aacgttgac 
gtcgtgacg tatgaaaac ggcgaaaag caagtattc 
aaccaggag ggccgagcg actccgtcc gccctttgg 
gactactac ggtaacggc tgcagtatt cgcgtatta 
aaccctcaa acttacaac cacaaagtc cacttactt 
ctggcgact cttcaagaa tattttggc acaatggtc 
ggggccaac gtatattta acaccgccg ggaagtcaa 
ggcttcgcc ccgcattac gacgacatt gaggccttt 
gttgtacag ttggaaggc cgaaagcac tggaagctg 
taccaacca aaaagtgaa gatgtttta gccagattt 
tcaagtcct aatttcaaa cgtgaggac ctaggggag 
cctttcatg gaactgact ttaaatgcc ggcgaactg 
ctgtatttc ccaaggggc acaatacat gagggtcgc 
actgatgaa gactcacat tcgttgcac atcacagtc 
tccgtttac caacaaacg tcttatgtg gatttgttg 
gaacacatt ttgcccaaa gcgttgaaa aaagccgcc 
gatagtgac gttgaattt cgtaaagga ctcccgctt 
aattattta aaagatttc ggattggcc gctgggtca 
aaaaatagg aaattcgtc acttcaaaa attaaagat 
ttgatgaat tctttaatc aactacgtg gatattgat 
agtgcagct gatcagttg ggcaagaaa tttatgcat 
gactccatg cccccagtt ttgacaaaa agcgaagcg 
gaaagatcc tctaaagct gatgggcca gttttaaaa 
gatggtgtt gttaaaaac agagtggaa attgactta 
gacacgaga gtacgtttg ttgcggtat tattgcatc 
cgtttagtt tgtgaagaa aactcgtcg ccaaaactc 
tattacaac actcaaaac gctacagtt taccacggt 
gaagaggaa cagtggttg gaattggag ccttcgatg 
gtgccctta attcagatg cttcaaaac acgtatcct 
cgctacatt gaagtggaa aaattacca ctggatgat 
atggccacc aaaatgcag ctagtttta gatttatgg 
gaacacggg ctcttagtc accgagtat cccttagat 
gtgatagag tattaa
    mRNA sequence
    • >TC007936 RA
      gcagagtaa aaatgagaa aaattaacg accaaaaaa 
ttatttaaa atttaaaat ttgttaata cgattaaag 
gtccaagaa aaatgtttt tgtaacagt gagtgccaa 
cattttacg tgtggggaa tttctcgtg agtgagctt 
tctcgtcta agaattttc gcgcgatca ggtttcacg 
tggtgaatt tttagtgtt gttattttg caataaata 
aaatgcctc ccacaaaaa atcctgatt tgcaatcgg 
tgtctgcgt tcttgatgt acaggaaga catcgacca 
ataaagaaa tcaccaaga aacgcaaaa atttaaaga 
aaaataaga aatcacaaa atattaaga agaaaatcg 
aagaagaaa ttacaaaaa cccttcctc taaaaccaa 
gtagaagac actctcaca gtattaaaa aaactcgtg 
acaatcaac cagagcaaa ttaaaaaac ctcttcctt 
caaaaaaag ttaatgtga ggcactctc ctgaacgag 
attttcttc cttcaagaa aattaaatg gcaatcaca 
atcaagact cttgtgatg aaagcataa ctcaaagtg 
ggtttttgc cagttgatg atccaacgg aagatgcac 
aaaagttgt tcgagtggc tgatacagc ccctttccc 
ctgcctctt tcttcaaaa cgtattggg aacagaaac 
ccctttaca taaaacggg ggaacaggt cgtactaca 
cccacattt tagattcaa gcagtttgg acaaaatcc 
ttcgaaaca atagtttat tttttacac gaaacgttg 
acgtcgtga cgtatgaaa acggcgaaa agcaagtat 
tcaaccagg agggccgag cgactccgt ccgcccttt 
gggactact acggtaacg gctgcagta ttcgcgtat 
taaaccctc aaacttaca accacaaag tccacttac 
ttctggcga ctcttcaag aatattttg gcacaatgg 
tcggggcca acgtatatt taacaccgc cgggaagtc 
aaggcttcg ccccgcatt acgacgaca ttgaggcct 
ttgttgtac agttggaag gccgaaagc actggaagc 
tgtaccaac caaaaagtg aagatgttt tagccagat 
tttcaagtc ctaatttca aacgtgagg acctagggg 
agcctttca tggaactga ctttaaatg ccggcgaac 
tgctgtatt tcccaaggg gcacaatac atgagggtc 
gcactgatg aagactcac attcgttgc acatcacag 
tctccgttt accaacaaa cgtcttatg tggatttgt 
tggaacaca ttttgccca aagcgttga aaaaagccg 
ccgatagtg acgttgaat ttcgtaaag gactcccgc 
ttaattatt taaaagatt tcggattgg ccgctgggt 
caaaaaata ggaaattcg tcacttcaa aaattaaag 
atttgatga attctttaa tcaactacg tggatattg 
atagtgcag ctgatcagt tgggcaaga aatttatgc 
atgactcca tgcccccag ttttgacaa aaagcgaag 
cggaaagat cctctaaag ctgatgggc cagttttaa 
aagatggtg ttgttaaaa acagagtgg aaattgact 
tagacacga gagtacgtt tgttgcggt attattgca 
tccgtttag tttgtgaag aaaactcgt cgccaaaac 
tctattaca acactcaaa acgctacag tttaccacg 
gtgaagagg aacagtggt tggaattgg agccttcga 
tggtgccct taattcaga tgcttcaaa acacgtatc 
ctcgctaca ttgaagtgg aaaaattac cactggatg 
atatggcca ccaaaatgc agctagttt tagatttat 
gggaacacg ggctcttag tcaccgagt atcccttag 
atgtgatag agtattaag ttttgcaga gttacataa 
taaattttt accaaggct

    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