Status
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Gene information
General information
TC007593 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: 2636001..2650571
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
    		TC007593
    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
    {{ blurEvidenceResult }}
    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_01227

    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: 20.0% (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 (11 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 50.0% (includes death as larva, prepupa, pupa, adult)

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

    adult lethality - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007593 RA
      MVLKYCDHL HGKWYFSEV RAIFSRKYL LQNVAIEIF 
LASRTSIMF AFPDQATVK KVIKALPRV GVGIKYGIP 
QTRRASMMS PRQLMRNSN MTQKWQRRE ISNFEYLMF 
LNTIAGRTY NDLNQYPVF PWVLTNYET KELDLSQPS 
NYRDLSKPI GALNPNRRA YFEERYSTW EHESIPPFH 
YGTHYSTAA FVYNWMIRV EPFTTMFLA LQGGKFDYP 
NRLFTSVSL SWKNCQRDT SDVKELIPE FFFLPEMFV 
NANRYRLGI GEDGKAIGD VELPPWANS PEEFVRINR 
MALESEFVS CQLHQWIDL VFGYKQRGP EAVRATNVF 
YYLTYESNV ELDSIQDKV MREAVENQI RNFGQTPSQ 
LLMEPHPPR SSAMHLSPM MFSSIPDDV CMTMKFLSN 
SPIVHISAN TYPQLSNPS VVTVTMHQQ FAVNRWNSG 
YAAVAQSPS YAETPQNQA ANLPLSMDP VLSQTNNSA 
QNHMLRRHL GDNFSQNLK IRSNCFVTT VDSKFLIAC 
GFWDNSFRV FSTETAKIV QIIFGHYGV VTCLSRSEC 
NITSDCYIA SGSVDCTVL LWHWNARTQ TIVGEGEIP 
TPRATLTGH EQPVSSVVI SAELGLVVS GSYNGPVLV 
HTTFGDLLR SLEPPQGYA SPENIAMSR EGVIVVNYE 
KGNIAAFTI NGKRLRHES HNDNLQCLL LSRDGEYLM 
TGGDKGIVE VWRTFNLAL LYAFPACDS SVRSLALSH 
DQKFLLAGL ALGSIVVFH IDFNRWHHE FQQRY
    CDS sequence
    • >TC007593 RA
      atggtcctg aaatactgc gaccacttg cacggaaag 
tggtacttt tccgaagtc agggccatc ttctcgcgg 
aaatacctg ctccagaat gtggccatc gagattttc 
ctcgccagc agaacttcc atcatgttt gcgtttccc 
gatcaagcc accgtgaaa aaggtaata aaggccttg 
cctcgggtg ggtgtgggt atcaaatat ggaatacca 
caaacaaga cgggctagt atgatgtca ccgcgacaa 
ctgatgagg aattcaaat atgacgcag aaatggcaa 
cgaagggag atatcaaat ttcgaatat ctcatgttt 
ctgaatacg atagccggt cgaacctac aacgacctc 
aaccaatac cccgtattt ccgtgggtc ctcaccaac 
tacgagacc aaagaactc gacctaagc caacctagc 
aactatcgt gacctttct aaacccatc ggagctctg 
aatccgaac cgacgagcc tatttcgag gagagatac 
tcgacatgg gagcacgaa agcatccca ccgttccat 
tacggcact cactactcg actgccgct ttcgtctac 
aactggatg attcgtgtc gagcccttc accacaatg 
ttcctcgcc ttgcaaggc ggcaaattc gactacccc 
aaccgactg ttcacttcg gtgtcgctt tcatggaag 
aactgtcag cgcgatact tccgacgtc aaggagtta 
atcccggag tttttcttc ctgccggag atgttcgtt 
aatgcgaat cgatacagg ttggggatc ggcgaggac 
gggaaggct atcggcgat gtggagcta ccaccatgg 
gcgaactcc ccggaggag ttcgtccgg attaaccga 
atggcgctc gagtcggag ttcgtgtct tgtcagctg 
caccaatgg atcgatttg gtgttcggc tacaagcag 
cgaggccca gaggccgtg cgagcgacc aatgttttt 
tactatttg acgtatgag agcaacgtt gagttggac 
tcgattcag gataaggtg atgagggaa gcagtggag 
aaccagatc cgcaatttc gggcaaaca ccgtcgcag 
ttgttgatg gaaccgcac cctccgcgg agctcagcc 
atgcatttg tcgcccatg atgttctcg agtattccc 
gatgatgtg tgcatgacc atgaagttc ctgtcgaat 
agtcccatc gtccacatt tcggccaac acttacccg 
cagttgtcc aacccatcg gtggtcaca gtgaccatg 
caccagcaa ttcgccgtc aatcggtgg aactctggg 
tacgcagct gtggcacag tcacccagt tatgcggaa 
acgccgcaa aatcaagct gccaattta ccactgtcc 
atggaccca gttttatcc caaacgaat aacagtgcc 
caaaatcac atgctccgc cgccacttg ggcgataat 
ttcagtcag aatttgaaa attcggtct aactgtttc 
gtcacgacc gttgatagt aaatttttg attgcttgc 
ggtttttgg gataatagt tttcgggtg ttttcgacc 
gagactgcc aaaatcgtg cagattatt ttcggtcat 
tacggcgtt gtcacttgt ttgtcacga tcggagtgt 
aatataact tccgattgt tatattgca tcgggaagt 
gtcgactgt accgttttg ttgtggcac tggaacgca 
cgaactcag acgattgtg ggcgaaggg gaaataccg 
actcctaga gcgactctg acggggcac gaacagccc 
gtttccagt gtggtgatc tcggccgag ctcggattg 
gtcgtttcg gggtcttac aatggtcct gtgttggtc 
cacacgacc ttcggcgat ctgctccgg tctttggag 
ccccctcag ggctacgcc tcgccggag aacatcgcg 
atgtcgcgc gagggcgtc atcgtcgtc aactacgaa 
aaggggaat attgccgca tttaccatc aacgggaaa 
cggctgaga cacgagtcc cataacgat aatttacag 
tgcctatta cttagccga gatggtgaa tatttgatg 
accggtgga gacaaaggc attgtggaa gtgtggaga 
acgttcaac ttggcttta ttatatgcc ttcccagcg 
tgtgatagt agcgttagg tctcttgcg ttatcacat 
gatcaaaag tttttgcta gcgggtcta gctctagga 
tcgatagtc gtatttcac attgatttc aatagatgg 
caccatgaa tttcagcaa cgttactaa
    mRNA sequence
    • >TC007593 RA
      aatccatcc acctggatg cacctttgg gggattagt 
ggtcgcgcg tcacccaca tggtcctga aatactgcg 
accacttgc acggaaagt ggtactttt ccgaagtca 
gggccatct tctcgcgga aatacctgc tccagaatg 
tggccatcg agattttcc tcgccagca gaacttcca 
tcatgtttg cgtttcccg atcaagcca ccgtgaaaa 
aggtaataa aggccttgc ctcgggtgg gtgtgggta 
tcaaatatg gaataccac aaacaagac gggctagta 
tgatgtcac cgcgacaac tgatgagga attcaaata 
tgacgcaga aatggcaac gaagggaga tatcaaatt 
tcgaatatc tcatgtttc tgaatacga tagccggtc 
gaacctaca acgacctca accaatacc ccgtatttc 
cgtgggtcc tcaccaact acgagacca aagaactcg 
acctaagcc aacctagca actatcgtg acctttcta 
aacccatcg gagctctga atccgaacc gacgagcct 
atttcgagg agagatact cgacatggg agcacgaaa 
gcatcccac cgttccatt acggcactc actactcga 
ctgccgctt tcgtctaca actggatga ttcgtgtcg 
agcccttca ccacaatgt tcctcgcct tgcaaggcg 
gcaaattcg actacccca accgactgt tcacttcgg 
tgtcgcttt catggaaga actgtcagc gcgatactt 
ccgacgtca aggagttaa tcccggagt ttttcttcc 
tgccggaga tgttcgtta atgcgaatc gatacaggt 
tggggatcg gcgaggacg ggaaggcta tcggcgatg 
tggagctac caccatggg cgaactccc cggaggagt 
tcgtccgga ttaaccgaa tggcgctcg agtcggagt 
tcgtgtctt gtcagctgc accaatgga tcgatttgg 
tgttcggct acaagcagc gaggcccag aggccgtgc 
gagcgacca atgtttttt actatttga cgtatgaga 
gcaacgttg agttggact cgattcagg ataaggtga 
tgagggaag cagtggaga accagatcc gcaatttcg 
ggcaaacac cgtcgcagt tgttgatgg aaccgcacc 
ctccgcgga gctcagcca tgcatttgt cgcccatga 
tgttctcga gtattcccg atgatgtgt gcatgacca 
tgaagttcc tgtcgaata gtcccatcg tccacattt 
cggccaaca cttacccgc agttgtcca acccatcgg 
tggtcacag tgaccatgc accagcaat tcgccgtca 
atcggtgga actctgggt acgcagctg tggcacagt 
cacccagtt atgcggaaa cgccgcaaa atcaagctg 
ccaatttac cactgtcca tggacccag ttttatccc 
aaacgaata acagtgccc aaaatcaca tgctccgcc 
gccacttgg gcgataatt tcagtcaga atttgaaaa 
ttcggtcta actgtttcg tcacgaccg ttgatagta 
aatttttga ttgcttgcg gtttttggg ataatagtt 
ttcgggtgt tttcgaccg agactgcca aaatcgtgc 
agattattt tcggtcatt acggcgttg tcacttgtt 
tgtcacgat cggagtgta atataactt ccgattgtt 
atattgcat cgggaagtg tcgactgta ccgttttgt 
tgtggcact ggaacgcac gaactcaga cgattgtgg 
gcgaagggg aaataccga ctcctagag cgactctga 
cggggcacg aacagcccg tttccagtg tggtgatct 
cggccgagc tcggattgg tcgtttcgg ggtcttaca 
atggtcctg tgttggtcc acacgacct tcggcgatc 
tgctccggt ctttggagc cccctcagg gctacgcct 
cgccggaga acatcgcga tgtcgcgcg agggcgtca 
tcgtcgtca actacgaaa aggggaata ttgccgcat 
ttaccatca acgggaaac ggctgagac acgagtccc 
ataacgata atttacagt gcctattac ttagccgag 
atggtgaat atttgatga ccggtggag acaaaggca 
ttgtggaag tgtggagaa cgttcaact tggctttat 
tatatgcct tcccagcgt gtgatagta gcgttaggt 
ctcttgcgt tatcacatg atcaaaagt ttttgctag 
cgggtctag ctctaggat cgatagtcg tatttcaca 
ttgatttca atagatggc accatgaat ttcagcaac 
gttactaaa cttagcacg tacttattc ctgttttaa 
tgtagtact taatattgg attttattg ttcaattac 
agtagcgtt tcgtttgtt tttggatat tttaatgtg 
caatatctt cgtagtttt ttattgtta aatgatttc 
gttttatgt atagatgta gataatggt tttacattc 
cgtagtaag ttagtattg gcttcgtct gttgtaaaa 
tactaactt atgaagata gtgtgcgtt attatatga 
tttgattcg agagaaact agcttttaa gggttaaaa 
cagttcaag tcaatcttt aaagctggc ttttaatca 
gttgtgagt gagttaagc acatagtta tgcttaggg 
cttgcacat ccattgcca gcaattgtt gagccagat 
ttggcgcac tttttcgat actgtatct tcatcaacg 
cccgaggtc ggtaaagat acagtcgtc ttaaaaacc 
attccctcc agcatatgt attatatat tgcaaatct 
gtccagata taaaaatca aacttattg tatataagt 
aacttgttt ttttatgat acgctactt aattatgtg 
tatttaaaa gtatttaat tcttgtatt attttatta 
cttatggag attgtactt aattgtaat aaggaacat 
tgtatgttt gatgttagc aataaacat tcatgattt 
gt

    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