Status
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Gene information
General information
TC007976 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: 3320090..3322362
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
    		TC007976
    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_07155

    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: 1 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 6 (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
    • >TC007976 RA
      MTTSSEDVL LQVPQVRYK KGDGTLFLM DQRLIWMVE 
NRDTVAVSH LYADIKSQK ISPEGKVKV QLQVVLHNG 
VSSTFHFTN RNGLQAQLA DRDKVKEML QTLLPKFKR 
KVDRELEEK NKLLSSNPA LLQLYKDLV MTEVVSSEE 
FWAQHASQY TQKQKQQPQ DIGVSGAFL ADIKPQTDG 
CNGLKYNIT PDIIECIFK TYPAVKKKY VENVPAKLS 
ESQFWTKFF QSHYFHRDR KYAESKDLF TECGKIDDQ 
EMKKDIQTG VDDPLVNIT EFEDKSLDE GYGVASEKT 
SVTSGTVSQ AMIKRFNQH SIMVLKATK KSNKSEETQ 
NAPKQNGNV SEVERPDEG HVAKKQRIL SKITYDDLD 
SASSSTNSG PSLNLSKVE RYLHGPMPD SSIEQLNPG 
EASSVLRGV LQETKQWQN RHPSSSLVT PAAAVGALG 
ELSPGGALM RGFQEQSLA QLVPSDIEN EVRNLYLAL 
CELLSHFWK CFPPSTPNL EQKAVKMHE ALHRYHTAK 
LKPFEDKLI RELSPLSHH LTKHLNQLL NAAYQKFSN 
WQKIKNR
    CDS sequence
    • >TC007976 RA
      atgactact tcgagtgaa gacgtgctc cttcaagtg 
ccccaagtt cgttacaaa aagggcgat gggaccctt 
tttctcatg gaccaacgt ttaatttgg atggttgag 
aaccgcgac acagtcgcg gtctcgcat ctatacgct 
gatatcaaa tcccagaaa atatcaccg gaaggtaaa 
gtgaaggtt cagttgcaa gtcgtgctt cataatgga 
gtgtcctcg acgtttcat tttacgaac aggaacggg 
ctacaagcc cagttggct gaccgtgat aaggttaag 
gagatgtta cagacttta ctgccaaaa ttcaaacga 
aaagtcgat agggagtta gaagagaaa aataaattg 
ttgtcgtca aatccggcg cttttgcag ctttacaaa 
gacttggtg atgactgag gtggtgtcg tctgaggag 
ttttgggcc caacatgcg tcccaatac acgcaaaag 
caaaagcaa cagccgcag gatattggt gtttctggt 
gccttctta gctgatatt aagccacaa accgacggt 
tgcaacggc ttaaaatac aacataacg cccgacata 
atcgaatgt atctttaaa acgtacccc gcggttaag 
aaaaaatac gtggagaac gttcccgcc aaattgtca 
gaatctcaa ttttggacg aagtttttc caatcgcat 
tatttccac cgcgaccgg aagtacgcc gaaagcaaa 
gatcttttc accgaatgt ggaaaaatc gacgatcag 
gaaatgaaa aaagatatt caaaccggt gttgatgac 
cctctggtc aacatcacc gaatttgag gataagtca 
ctggatgag ggctatggt gtcgcaagt gaaaaaaca 
agcgtcacc tccggtaca gttagtcaa gcaatgatc 
aaacgcttc aaccagcat tcaattatg gtgttaaaa 
gccacgaaa aaatcaaac aaaagcgag gaaacgcaa 
aacgcgcct aaacaaaac ggaaacgtt agcgaagta 
gagagacct gacgaaggt cacgtagcg aaaaaacaa 
cgaattctg agtaaaatc acttacgac gacttagat 
tcagccagt agtagcact aacagcggt cctagtctt 
aatttatcg aaagtagag cgatattta cacggcccg 
atgcccgac tctagcata gagcagtta aaccctggc 
gaagcctcc tctgtgtta cgtggggtc ctgcaggag 
acgaaacag tggcaaaat cggcacccg agcagctcg 
ctagtgacg cccgcggcg gccgtgggg gccctcgga 
gagctgtct cccgggggg gcgctcatg cgtggcttc 
caggagcag tcgctggca caactggtg ccgtctgat 
atcgaaaat gaagttagg aatttgtac ctggccttg 
tgcgagttg ttgagtcat ttctggaag tgctttccg 
ccaagtacg ccgaatttg gaacagaaa gctgtgaaa 
atgcacgag gcgttgcat agataccat actgccaaa 
ttgaaacca tttgaggat aaattgatc agggagtta 
tcaccgtta tcacatcat ttgaccaaa catcttaat 
cagttgctg aatgccgcc tatcagaaa tttagtaat 
tggcaaaag atcaagaat cggtag
    mRNA sequence
    • >TC007976 RA
      aacccccgg taattaacc ccaaagtga ttatgtttc 
aagcaaaga ttgcaaaat ttgtggaaa tcgttaatg 
aatgagttg gtcgatgtg ttggcaccc ttgcgccgg 
ctaccatca ctcacgtca ttcatgtat ccatatagg 
ttagaacct caaagtgct aaaaatcgg gttattatt 
aacccagga gtgtttaaa gcccgtttc gtgtttatt 
atgaaagca aataaaccc agtttaaaa taattcgta 
tctgtgact ttgtgtttt atcatgact acttcgagt 
gaagacgtg ctccttcaa gtgccccaa gttcgttac 
aaaaagggc gatgggacc ctttttctc atggaccaa 
cgtttaatt tggatggtt gagaaccgc gacacagtc 
gcggtctcg catctatac gctgatatc aaatcccag 
aaaatatca ccggaaggt aaagtgaag gttcagttg 
caagtcgtg cttcataat ggagtgtcc tcgacgttt 
cattttacg aacaggaac gggctacaa gcccagttg 
gctgaccgt gataaggtt aaggagatg ttacagact 
ttactgcca aaattcaaa cgaaaagtc gatagggag 
ttagaagag aaaaataaa ttgttgtcg tcaaatccg 
gcgcttttg cagctttac aaagacttg gtgatgact 
gaggtggtg tcgtctgag gagttttgg gcccaacat 
gcgtcccaa tacacgcaa aagcaaaag caacagccg 
caggatatt ggtgtttct ggtgccttc ttagctgat 
attaagcca caaaccgac ggttgcaac ggcttaaaa 
tacaacata acgcccgac ataatcgaa tgtatcttt 
aaaacgtac cccgcggtt aagaaaaaa tacgtggag 
aacgttccc gccaaattg tcagaatct caattttgg 
acgaagttt ttccaatcg cattatttc caccgcgac 
cggaagtac gccgaaagc aaagatctt ttcaccgaa 
tgtggaaaa atcgacgat caggaaatg aaaaaagat 
attcaaacc ggtgttgat gaccctctg gtcaacatc 
accgaattt gaggataag tcactggat gagggctat 
ggtgtcgca agtgaaaaa acaagcgtc acctccggt 
acagttagt caagcaatg atcaaacgc ttcaaccag 
cattcaatt atggtgtta aaagccacg aaaaaatca 
aacaaaagc gaggaaacg caaaacgcg cctaaacaa 
aacggaaac gttagcgaa gtagagaga cctgacgaa 
ggtcacgta gcgaaaaaa caacgaatt ctgagtaaa 
atcacttac gacgactta gattcagcc agtagtagc 
actaacagc ggtcctagt cttaattta tcgaaagta 
gagcgatat ttacacggc ccgatgccc gactctagc 
atagagcag ttaaaccct ggcgaagcc tcctctgtg 
ttacgtggg gtcctgcag gagacgaaa cagtggcaa 
aatcggcac ccgagcagc tcgctagtg acgcccgcg 
gcggccgtg ggggccctc ggagagctg tctcccggg 
ggggcgctc atgcgtggc ttccaggag cagtcgctg 
gcacaactg gtgccgtct gatatcgaa aatgaagtt 
aggaatttg tacctggcc ttgtgcgag ttgttgagt 
catttctgg aagtgcttt ccgccaagt acgccgaat 
ttggaacag aaagctgtg aaaatgcac gaggcgttg 
catagatac catactgcc aaattgaaa ccatttgag 
gataaattg atcagggag ttatcaccg ttatcacat 
catttgacc aaacatctt aatcagttg ctgaatgcc 
gcctatcag aaatttagt aattggcaa aagatcaag 
aatcggtag tacaaagtt tttgggacg gcttcagta 
ttatttctc gtgtctcat tattgtaaa tggcaataa 
gtcaaaaag acaattatt ttttaaaac cttcttatt 
tatattgtt agattctca tttttaagt cctattttc 
ttgttactg taataaatt gtaccaaaa gtc

    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