Status
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Gene information
General information
TC007053 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: 10529366..10558253
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
    		TC007053
    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
    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_08171

    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)

    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: 2 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    antenna antennal flagellum unilateral not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    labrum slightly size decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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: % (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
    • >TC007053 RA
      MWVYWLVLL GMLVERSLS CPVSCSCKW KNGKQTVIC 
SGKSLTDIP DGLDPGTQV LDFSGNFLS NLRRELFSN 
KQLINLQRI YLSNCQIKI INEKTFKGL SNLVELDLS 
RNLLETVPT SSFVDCPSL MRLTLSSNP LTVLKRLAF 
NHLSYLSTL ELDKCKIVE IEDGAFQGL HSLEWLLLE 
DNGLRTIRG ELPRNLKGV ELRGNPWEC DCHIKELHV 
WLGRFNVPI SEEPTCSGP PRLASRVIK SIPVSELAC 
LPDVSPTTF YLELAEGKN VSLQCHVHS IPEASVSWW 
FRGQILQNN TIVSPGIHL IYFVEEGAE NKRSELFIY 
NANSEDNGT FICNAENAA GTSQSNFTI KIIIKEDPI 
VIIVEFPFE CLLAAAIGA VVLALLIIS GIIISILRC 
KRRKEPLQG KTEEDTNPK PTPDDDTLY VCEDHPVPN 
HQSPTLLFQ DQNPDLINH RWLDSEGYP LDYGLPKLP 
TNYYRTLPS RPKRQSLQR PRYSQEAEF LAYDHYHTD 
VRYTADGYP LPSNDGAPC CSIQWPVCV PANLHMVNN 
NPNEMVYEP PSGIIKRCV GAQTEDEKI DSNEAGNEA 
MTESPDEGY EGEPAVV
    CDS sequence
    • >TC007053 RA
      atgtgggtt tattggttg gtcttgctt ggaatgctc 
gttgaaaga agcctctca tgccccgtc tcctgttcc 
tgcaagtgg aaaaatggc aagcaaact gtgatctgt 
tccggtaaa agtctgacc gacatcccc gacggtttg 
gatccgggt actcaagtc ctggatttc tccggcaac 
ttcctcagc aatctccgt cgcgaacta ttcagcaac 
aaacaactg attaacttg cagcgcatt tatttgtcc 
aattgtcaa ataaaaata ataaacgag aaaactttc 
aagggtttg tcaaacttg gtcgagctc gatctctct 
cggaatttg cttgaaacg gtgcctacg agttcgttt 
gtggactgt ccttcttta atgagacta actctaagc 
tcgaaccct ttaaccgtt ttaaaaaga ctggctttc 
aatcattta tcgtatctc agcacactc gagctcgat 
aaatgcaaa attgtggag attgaggac ggggctttt 
caaggcttg cacagtctg gagtggcta ctcctcgaa 
gataatggt ttgaggacg attcggggg gaattaccc 
aggaatttg aaaggtgtg gagttgcgg gggaatccc 
tgggagtgc gactgtcac attaaggag ttgcacgtt 
tggctgggg cgctttaac gtgcccatc tccgaagag 
ccgacttgt tcagggcct cctcgactc gcttcccgg 
gttattaaa tcgataccg gtctctgaa ctcgcttgt 
cttcctgac gtatccccc acaacgttt tatctggag 
ctggccgaa ggcaagaac gtatctctg caatgtcac 
gtgcattct atcccggaa gcttccgtc tcctggtgg 
ttccgcgga cagatcctc cagaacaat accatcgta 
tccccggga atccacttg atttacttc gtggaggag 
ggcgcggag aacaagcgc agtgaactg ttcatctat 
aacgccaac tccgaagac aatggtaca tttatctgc 
aacgccgaa aacgccgct ggaacatcg caatcgaat 
tttacaatc aagataatt attaaagaa gatccgatt 
gtaattatc gttgagttt cctttcgaa tgtctccta 
gcggcggcg atcggagct gtcgtttta gccctccta 
ataatctcc ggtatcatc atatcgatc ctccgatgc 
aaacggcgg aaagagccc ctgcaagga aaaaccgaa 
gaggacact aaccccaag cccaccccc gacgacgac 
acactttac gtctgcgag gatcacccg gttcctaat 
caccaaagc ccaactttg ctcttccaa gaccaaaac 
cccgacctt atcaaccac cgatggctc gactccgag 
ggctacccc ctcgactac ggccttccg aaactcccg 
acgaattac taccgaacg ctgccgagt aggcccaaa 
cgacaatca ctccaaaga ccgagatac tcgcaagaa 
gccgaattc ctggcttac gatcattac cacaccgat 
gtccgttac acagctgac ggatatccg ttgccgtca 
aatgacgga gctccttgc tgttcgatt cagtggccg 
gtttgtgtg cccgcgaat ctacacatg gttaataat 
aatcccaat gagatggtt tatgagccg ccgagcgga 
attatcaaa cgctgcgtc ggagctcaa accgaagat 
gagaagatt gattccaat gaggctgga aatgaagcg 
atgaccgaa agtccagat gagggatat gagggagaa 
ccggccgtc gtatag
    mRNA sequence
    • >TC007053 RA
      ttggtagca ctggagcca ccgcgacct taactttga 
atctcaatt agaaatgtt tgtgtgttt tgaacaatt 
tgtattggt ttgtcgagc aatgtgagc tttcgaggg 
tcgagtgat ggaaaatgt gggtttatt ggttggtct 
tgcttggaa tgctcgttg aaagaagcc tctcatgcc 
ccgtctcct gttcctgca agtggaaaa atggcaagc 
aaactgtga tctgttccg gtaaaagtc tgaccgaca 
tccccgacg gtttggatc cgggtactc aagtcctgg 
atttctccg gcaacttcc tcagcaatc tccgtcgcg 
aactattca gcaacaaac aactgatta acttgcagc 
gcatttatt tgtccaatt gtcaaataa aaataataa 
acgagaaaa ctttcaagg gtttgtcaa acttggtcg 
agctcgatc tctctcgga atttgcttg aaacggtgc 
ctacgagtt cgtttgtgg actgtcctt ctttaatga 
gactaactc taagctcga accctttaa ccgttttaa 
aaagactgg ctttcaatc atttatcgt atctcagca 
cactcgagc tcgataaat gcaaaattg tggagattg 
aggacgggg cttttcaag gcttgcaca gtctggagt 
ggctactcc tcgaagata atggtttga ggacgattc 
ggggggaat tacccagga atttgaaag gtgtggagt 
tgcggggga atccctggg agtgcgact gtcacatta 
aggagttgc acgtttggc tggggcgct ttaacgtgc 
ccatctccg aagagccga cttgttcag ggcctcctc 
gactcgctt cccgggtta ttaaatcga taccggtct 
ctgaactcg cttgtcttc ctgacgtat cccccacaa 
cgttttatc tggagctgg ccgaaggca agaacgtat 
ctctgcaat gtcacgtgc attctatcc cggaagctt 
ccgtctcct ggtggttcc gcggacaga tcctccaga 
acaatacca tcgtatccc cgggaatcc acttgattt 
acttcgtgg aggagggcg cggagaaca agcgcagtg 
aactgttca tctataacg ccaactccg aagacaatg 
gtacattta tctgcaacg ccgaaaacg ccgctggaa 
catcgcaat cgaatttta caatcaaga taattatta 
aagaagatc cgattgtaa ttatcgttg agtttcctt 
tcgaatgtc tcctagcgg cggcgatcg gagctgtcg 
ttttagccc tcctaataa tctccggta tcatcatat 
cgatcctcc gatgcaaac ggcggaaag agcccctgc 
aaggaaaaa ccgaagagg acactaacc ccaagccca 
cccccgacg acgacacac tttacgtct gcgaggatc 
acccggttc ctaatcacc aaagcccaa ctttgctct 
tccaagacc aaaaccccg accttatca accaccgat 
ggctcgact ccgagggct accccctcg actacggcc 
ttccgaaac tcccgacga attactacc gaacgctgc 
cgagtaggc ccaaacgac aatcactcc aaagaccga 
gatactcgc aagaagccg aattcctgg cttacgatc 
attaccaca ccgatgtcc gttacacag ctgacggat 
atccgttgc cgtcaaatg acggagctc cttgctgtt 
cgattcagt ggccggttt gtgtgcccg cgaatctac 
acatggtta ataataatc ccaatgaga tggtttatg 
agccgccga gcggaatta tcaaacgct gcgtcggag 
ctcaaaccg aagatgaga agattgatt ccaatgagg 
ctggaaatg aagcgatga ccgaaagtc cagatgagg 
gatatgagg gagaaccgg ccgtcgtat agtgttaag 
agagcgcga atgcaatca cagggtaat gttttagtt 
aggttttgt atcccgatt tctttatct agactgtgt 
atatactgt agagtttta gaatttttt tcgtaataa 
attacttaa tcggaagcg tttccaaat ttatgcaat 
aaatcacga tattaccat aatgtgtag agtgaatat 
tgttcaaca agctctatt gtcagcgtc gaatacagt 
tttttccca att

    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