Status
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Gene information
General information
TC003007 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_007418.3: 4771234..4776479
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
    		TC003007
    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 *
    {{ blurReferenceResult }}
    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_00499

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    Fertility
    vitellarium shortened - Number of animals showing the phenotype: 4

    vitellarium broader - Number of animals showing the phenotype: 4
    tropharium structure irregular - Number of animals showing the phenotype: 4
    egg chamber not present - 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: 90.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    pupal molt not fulfilled (died as pupa) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    Pupal morphology
    antenna shortened - Number of animals showing the phenotype: 4

    wings blistered - Number of animals showing the phenotype: 8
    wings shortened - Number of animals showing the phenotype: 8
    legs shape irregular - Number of animals showing the phenotype: 8
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003007 RA
      MSAKLDVNR RVLAIQAKK KRHKPAKKK GKNEMNGHG 
ENRINSKTE PSHSSSNET IEDQDDPYT SEEEEQEDS 
NDYRKGGYH PVKIGDLFL NRYHVTRKL GWGHFSTVW 
LCWDLQDRR FVALKIVKS AEHFTETAL DEIKILKAV 
RESDPTDPK RNKTVQLLN DFKISGING VHVCMVFEV 
LGHHLLKLI IKSNYRGIP LDNVRTIMR QVLEGLDYL 
HTKCKIIHT DIKPENVLI CVSEEYIRR LACEAAEMH 
HLGLKLPTS LISTAPVQE VQASKMSKN KKKKLKKKA 
KRLNELLKR QMEQIIEIE EQKKVKENG DVATDNDCN 
GTSPSPETT PEGPEDKLS NGCLDELAG GEAPASEDS 
VTEAVMQMS EDDSPSLTS RSELKVEAD PAFTVCDFD 
VKIADLGNA CWVDKHFTE DIQTRQYRS LEVLLGAEY 
GTSADIWST ACMAFELAT GDYLFEPHS GEDYCRDED 
HLAHIIELL GNIPRRIAQ SGRNSKLIF NKKNELRHI 
TGLKPWGLE DVLTEKYEW SRQDAEEFA AFLKPMLDF 
DPNTRATAA ECLQHAWLN KK
    CDS sequence
    • >TC003007 RA
      atgagcgca aaattggac gtaaataga cgtgtctta 
gctatccaa gctaaaaag aaacgacat aagccagct 
aagaaaaaa ggtaagaac gaaatgaac ggccacggg 
gaaaaccgg atcaattcg aagaccgag ccctcgcac 
agctccagc aatgagacg atcgaagac caggacgac 
ccgtacacg agcgaggag gaggagcaa gaagacagc 
aatgactac cggaaaggg ggctaccat cctgtcaaa 
atcggggac ctgttcctc aaccgctat cacgtcacg 
cggaagctg ggctggggc cacttctcc accgtgtgg 
ctgtgctgg gacctgcag gaccggcgg ttcgtggcc 
ctgaagatc gtcaaatcg gccgaacac ttcaccgaa 
acggcgctt gacgaaatc aaaatttta aaagcggtg 
cgggagtcc gaccccacg gaccccaaa cgcaacaag 
actgtccag ttgttgaac gacttcaag atcagcgga 
atcaacggc gtgcacgtg tgcatggtc tttgaagtg 
cttggccac cacctgtta aagctaatt atcaaatcg 
aactaccga gggatccct ctggacaac gtccgcaca 
atcatgcgg caggttctg gaaggtctc gactatttg 
catacgaaa tgtaaaata atccacacc gatatcaag 
cccgaaaac gtcctgatt tgtgttagt gaagagtat 
atcaggagg ctggcgtgc gaggcggcg gaaatgcac 
catctaggc ttaaaatta cccacgtct cttataagc 
accgcaccg gtccaggaa gtacaagcg tcgaaaatg 
agcaaaaac aagaagaag aagctgaag aagaaggcg 
aaacgactt aatgagcta cttaaacgg cagatggag 
caaatcata gagattgag gagcagaag aaggtgaag 
gaaaacggc gatgtggcg actgataac gactgcaat 
ggaactagt ccgagtccc gagacgacg cccgagggc 
cccgaagac aaactctcc aacggttgc cttgacgaa 
ctcgccggg ggcgaggcc cccgccagc gaggacagc 
gttaccgaa gccgtcatg caaatgtcc gaagatgat 
tccccctcg ctgacgtcc agaagcgag ctcaaggtc 
gaggccgac ccggcgttt acggtctgt gatttcgat 
gtgaaaata gccgatttg ggcaacgcg tgttgggtc 
gacaagcac ttcaccgaa gacatccaa acgcggcaa 
taccgctcg ctggaggtg ctcctgggg gcagagtac 
ggcacttcg gccgacatc tggagcacc gcgtgcatg 
gccttcgag cttgcgacg ggcgactac ctgttcgag 
ccccactcg ggggaggac tactgcagg gacgaggac 
catctagcc cacataatc gaactgtta ggcaacatc 
ccgcgccgg atcgcccaa agcggacgg aactcgaag 
ctgatcttc aacaagaag aacgagctg aggcacatc 
accgggctg aagccgtgg ggcctggag gacgtgctg 
acggaaaag tacgagtgg agtcgtcag gacgccgag 
gagtttgcg gcgtttttg aaaccgatg ctggacttt 
gatcccaac acgagggcc acggccgca gagtgtctc 
caacacgct tggctcaac aagaaatga
    mRNA sequence
    • >TC003007 RA
      ttaaaaaat tctcgtcga gctcggcgg ccataatca 
aacaaaact gttttcgta gaaatgacg attatttaa 
cattcttat tgatttact gtggttttt aattgaaca 
attttacaa atgagcgca aaattggac gtaaataga 
cgtgtctta gctatccaa gctaaaaag aaacgacat 
aagccagct aagaaaaaa ggtaagaac gaaatgaac 
ggccacggg gaaaaccgg atcaattcg aagaccgag 
ccctcgcac agctccagc aatgagacg atcgaagac 
caggacgac ccgtacacg agcgaggag gaggagcaa 
gaagacagc aatgactac cggaaaggg ggctaccat 
cctgtcaaa atcggggac ctgttcctc aaccgctat 
cacgtcacg cggaagctg ggctggggc cacttctcc 
accgtgtgg ctgtgctgg gacctgcag gaccggcgg 
ttcgtggcc ctgaagatc gtcaaatcg gccgaacac 
ttcaccgaa acggcgctt gacgaaatc aaaatttta 
aaagcggtg cgggagtcc gaccccacg gaccccaaa 
cgcaacaag actgtccag ttgttgaac gacttcaag 
atcagcgga atcaacggc gtgcacgtg tgcatggtc 
tttgaagtg cttggccac cacctgtta aagctaatt 
atcaaatcg aactaccga gggatccct ctggacaac 
gtccgcaca atcatgcgg caggttctg gaaggtctc 
gactatttg catacgaaa tgtaaaata atccacacc 
gatatcaag cccgaaaac gtcctgatt tgtgttagt 
gaagagtat atcaggagg ctggcgtgc gaggcggcg 
gaaatgcac catctaggc ttaaaatta cccacgtct 
cttataagc accgcaccg gtccaggaa gtacaagcg 
tcgaaaatg agcaaaaac aagaagaag aagctgaag 
aagaaggcg aaacgactt aatgagcta cttaaacgg 
cagatggag caaatcata gagattgag gagcagaag 
aaggtgaag gaaaacggc gatgtggcg actgataac 
gactgcaat ggaactagt ccgagtccc gagacgacg 
cccgagggc cccgaagac aaactctcc aacggttgc 
cttgacgaa ctcgccggg ggcgaggcc cccgccagc 
gaggacagc gttaccgaa gccgtcatg caaatgtcc 
gaagatgat tccccctcg ctgacgtcc agaagcgag 
ctcaaggtc gaggccgac ccggcgttt acggtctgt 
gatttcgat gtgaaaata gccgatttg ggcaacgcg 
tgttgggtc gacaagcac ttcaccgaa gacatccaa 
acgcggcaa taccgctcg ctggaggtg ctcctgggg 
gcagagtac ggcacttcg gccgacatc tggagcacc 
gcgtgcatg gccttcgag cttgcgacg ggcgactac 
ctgttcgag ccccactcg ggggaggac tactgcagg 
gacgaggac catctagcc cacataatc gaactgtta 
ggcaacatc ccgcgccgg atcgcccaa agcggacgg 
aactcgaag ctgatcttc aacaagaag aacgagctg 
aggcacatc accgggctg aagccgtgg ggcctggag 
gacgtgctg acggaaaag tacgagtgg agtcgtcag 
gacgccgag gagtttgcg gcgtttttg aaaccgatg 
ctggacttt gatcccaac acgagggcc acggccgca 
gagtgtctc caacacgct tggctcaac aagaaatga 
gttgctctc tatgtagtt aaattagac ttgaaccca 
aaattagtt tattgtaag caattttct attggaacc 
attgctaac tgtcggcgt tttccagta gagcactgc 
cttgtgtaa attatttct gggattggt tgtgctgca 
gatataggt gactgaatt attttaaat tgcttgtta 
gctgaccag agcgtttat ttcatagtt taacttcaa 
ggcaagttg gcgccgtct gccgttatg ttaaagtaa 
tttattttc atctggttc tacagggcc tttgtttct 
tgtatatag atttgtcat agagaaatt gtgatgtat 
gtgtttcat agacaatat atctgtcct ccttggctg 
ctttacaga aattttcgt ttatgtaat aaatgttcc 
gtatttatt aattcatgt ttgtattta tgtggcggc 
caaggagtc aatcgtaga tgaatgtct acccaactg 
gagttatga gaacattta gacgcgatg acaaggctc 
atcagttcc atactagtt aaagcacca acatttgta 
ttaaaccat atttaaaat taaaagtat acaatgtac 
attgaatct ctatatgct aagtatata ttaaattga 
tatttcgtg ttttatttg tagtgttta aacgacttt 
tacacatgt gctttcagt tccatcttt tgtaaaaat 
tgaacacaa ataaaattt aatttcaat cagaaacgc 
tcgtggccc tttcagtac ttgtcctca cagccacga 
cctcaaaat aatttacac actttttgg gtacatgaa 
tattttaaa taaatacaa cagctaaaa

    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