Status
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Gene information
General information
TC007439 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: 4487263..4492410
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
    		TC007439
    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
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01189

    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)

    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 4
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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): 50% - 80%
    thorax number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007439 RA
      MTDNHEVPN PKDFLAQMG PIETLLGSL SYNDIDNVD 
GKTQQLRTS ARVFKKMKF DLSSVEKKV EKKEEVKPE 
EKQEVKKPA NPFWSSEEK NLFFEALNE YGKDFESIH 
GYISTRLKK KGVPEDLIK NKLQVRHFY YKTFHMLLG 
PLKFNEKIP KNVQELYTL INFGEMRRK LGSISKKNC 
SKLNDLIAN GSVPLRLKG KTVRVKTPM CRALRRLNQ 
LDEKYDDLK LPTRVLVEL RPKNMASFL RVQSVAQNP 
RIKVALSLQ KRLSSLITC INTRWKTSE AVVYDKAVI 
STNPVTKNC VPDTKTIDD STLLLNPLL RLSPPPEAH 
IELPSIDIS EYFNGQSIS LNAFELRKG VKKEEPEAP 
PKTEKSPNK PDEEEIPKS VTSVVDEAV NTILSLQVQ 
NKTDTKTAT TTNPKDIPN EEKISRIEQ IKQGWTLEN 
CASLTIGEI YLMYGCDSK MVLEYSWDC LIKSNDETK 
QENDLTNSL KKLLSLAKI QSEKPVMKC TCGHVCGKP 
STQQFKKPV APKVVKQKQ VSHETNHVQ EKVEVSEPK 
PAPEPKKAP PEEPFHDTS SSVVHLFSQ RDKFRIKGR 
TRFKHLVVE RKLVPNKSE NKHEIVSMD IVSQDKPDD 
MPLVNSSGL PSMLMGDND TRMSEKSFS GFLGDNQSN 
SAMSTGLSK ILKENENQW INADVADYS LSSLLGHLD 
CPSKTNQSM VSLSHDDTQ LSQDVDAQL RTLLIETSV 
DYTAKFADL AAQVVENKK
    CDS sequence
    • >TC007439 RA
      atgaccgac aaccatgag gtccccaac cctaaagac 
ttcctggcc cagatgggc cccatcgag acccttctg 
ggttcgctg tcttacaac gacatcgac aatgtcgat 
ggcaaaacc cagcaattg cgcaccagc gctcgcgtt 
ttcaaaaaa atgaaattc gacctctcc tccgtcgag 
aaaaaagtc gaaaagaag gaggaagtc aagccggag 
gagaagcaa gaagtgaag aaaccggcc aatccgttc 
tggtcgagc gaagagaag aatcttttc ttcgaagcg 
ttgaacgaa tacgggaag gattttgaa agcatccac 
gggtacatc agcacccgc ttgaagaag aaaggggtc 
ccggaggac ctcatcaag aacaagctg caagtcagg 
cacttttat tacaaaacc ttccacatg ttgttgggg 
ccgttgaaa tttaacgag aaaattccg aaaaacgtg 
caagagctg tacacgttg atcaatttt ggcgaaatg 
aggagaaaa cttggcagt atctcgaaa aaaaattgc 
tcgaaactg aacgatttg attgcaaac ggttcagtt 
cctttgagg cttaagggg aaaaccgtc agggttaaa 
actccaatg tgtagggct ttgagacgc ttgaaccaa 
ttagatgaa aaatacgat gatcttaaa ttgccaacg 
agggttttg gtcgagctc agaccaaaa aacatggct 
tcgtttctc agagtgcaa agtgttgct caaaatccg 
cgaatcaaa gtcgcactc tcgctacaa aagcggttg 
agctcgctt atcacgtgc ataaacacc cgctggaag 
acctccgag gccgttgtt tacgataaa gctgtgatt 
tcgacaaac ccggtaaca aaaaattgc gttcctgat 
acgaaaaca attgatgat agtacgttg ttactgaat 
ccgctctta aggctgtct cctccgccg gaggcccac 
attgagttg ccttcaatc gatatcagc gaatatttc 
aacggtcaa agcatatca cttaatgca ttcgaattg 
agaaaaggg gttaaaaag gaggagcct gaagcgccc 
cccaagact gaaaaatcg ccgaacaag cctgacgaa 
gaggaaatc cccaaatcg gtcaccagc gtcgtggac 
gaggcagtc aacacaatt ctctcgctg caagtccag 
aataaaacc gacaccaag actgccacc acaaccaac 
cctaaagat atccccaat gaggagaaa atatcaagg 
atcgagcaa atcaagcag gggtggact ttggagaat 
tgcgccagt ttgaccatt ggcgagatc tacttgatg 
tacgggtgt gactcaaaa atggtgctc gagtacagc 
tgggactgt ctgatcaaa tcaaacgac gaaacgaaa 
caagaaaac gacttaaca aattcgctc aaaaaactt 
ctatctttg gcaaaaata caaagcgaa aagcctgtg 
atgaagtgc acctgcggc cacgtttgc ggcaagccc 
agcacgcaa cagttcaaa aagccggtg gcccccaaa 
gtcgtgaaa caaaaacaa gtgagccat gagaccaat 
cacgttcaa gagaaagtg gaggtgtct gaacccaaa 
ccggcgccc gaaccgaag aaagcgccc ccggaggag 
cccttccat gatacgagc agttcggtg gttcacttg 
ttcagccaa cgcgataag ttcaggata aaggggcgc 
acccgcttc aagcacttg gtggtcgaa cgtaaacta 
gttcctaat aaatccgag aacaagcac gagatcgtg 
tccatggat attgtgtct caggacaag cctgacgat 
atgcctctt gtcaattct agcgggctt ccgtcgatg 
ttaatgggt gataacgac acgcgtatg agtgagaag 
agcttcagt ggttttttg ggtgataat cagtcgaat 
tcggccatg tcgaccgga ttgtcgaaa atactgaaa 
gaaaatgag aaccaatgg atcaatgcc gacgttgcc 
gactattcg ctcagcagt cttttgggc catttggac 
tgtccgtcg aaaacgaac caatcaatg gtcagtctt 
tcgcacgac gacacgcaa ttgtcccaa gatgtggat 
gcccagtta cggactctg ttgattgaa acgagtgtc 
gactacacg gccaaattc gctgatctg gcagctcaa 
gttgtggaa aataagaag taa
    mRNA sequence
    • >TC007439 RA
      cagagaaaa cagttatgt gtactttgt tgagtgtat 
aatggacca attttttgc tttattttt tcccagact 
ttgaatttg taacaatga ccgacaacc atgaggtcc 
ccaacccta aagacttcc tggcccaga tgggcccca 
tcgagaccc ttctgggtt cgctgtctt acaacgaca 
tcgacaatg tcgatggca aaacccagc aattgcgca 
ccagcgctc gcgttttca aaaaaatga aattcgacc 
tctcctccg tcgagaaaa aagtcgaaa agaaggagg 
aagtcaagc cggaggaga agcaagaag tgaagaaac 
cggccaatc cgttctggt cgagcgaag agaagaatc 
ttttcttcg aagcgttga acgaatacg ggaaggatt 
ttgaaagca tccacgggt acatcagca cccgcttga 
agaagaaag gggtcccgg aggacctca tcaagaaca 
agctgcaag tcaggcact tttattaca aaaccttcc 
acatgttgt tggggccgt tgaaattta acgagaaaa 
ttccgaaaa acgtgcaag agctgtaca cgttgatca 
attttggcg aaatgagga gaaaacttg gcagtatct 
cgaaaaaaa attgctcga aactgaacg atttgattg 
caaacggtt cagttcctt tgaggctta aggggaaaa 
ccgtcaggg ttaaaactc caatgtgta gggctttga 
gacgcttga accaattag atgaaaaat acgatgatc 
ttaaattgc caacgaggg ttttggtcg agctcagac 
caaaaaaca tggcttcgt ttctcagag tgcaaagtg 
ttgctcaaa atccgcgaa tcaaagtcg cactctcgc 
tacaaaagc ggttgagct cgcttatca cgtgcataa 
acacccgct ggaagacct ccgaggccg ttgtttacg 
ataaagctg tgatttcga caaacccgg taacaaaaa 
attgcgttc ctgatacga aaacaattg atgatagta 
cgttgttac tgaatccgc tcttaaggc tgtctcctc 
cgccggagg cccacattg agttgcctt caatcgata 
tcagcgaat atttcaacg gtcaaagca tatcactta 
atgcattcg aattgagaa aaggggtta aaaaggagg 
agcctgaag cgcccccca agactgaaa aatcgccga 
acaagcctg acgaagagg aaatcccca aatcggtca 
ccagcgtcg tggacgagg cagtcaaca caattctct 
cgctgcaag tccagaata aaaccgaca ccaagactg 
ccaccacaa ccaacccta aagatatcc ccaatgagg 
agaaaatat caaggatcg agcaaatca agcaggggt 
ggactttgg agaattgcg ccagtttga ccattggcg 
agatctact tgatgtacg ggtgtgact caaaaatgg 
tgctcgagt acagctggg actgtctga tcaaatcaa 
acgacgaaa cgaaacaag aaaacgact taacaaatt 
cgctcaaaa aacttctat ctttggcaa aaatacaaa 
gcgaaaagc ctgtgatga agtgcacct gcggccacg 
tttgcggca agcccagca cgcaacagt tcaaaaagc 
cggtggccc ccaaagtcg tgaaacaaa aacaagtga 
gccatgaga ccaatcacg ttcaagaga aagtggagg 
tgtctgaac ccaaaccgg cgcccgaac cgaagaaag 
cgcccccgg aggagccct tccatgata cgagcagtt 
cggtggttc acttgttca gccaacgcg ataagttca 
ggataaagg ggcgcaccc gcttcaagc acttggtgg 
tcgaacgta aactagttc ctaataaat ccgagaaca 
agcacgaga tcgtgtcca tggatattg tgtctcagg 
acaagcctg acgatatgc ctcttgtca attctagcg 
ggcttccgt cgatgttaa tgggtgata acgacacgc 
gtatgagtg agaagagct tcagtggtt ttttgggtg 
ataatcagt cgaattcgg ccatgtcga ccggattgt 
cgaaaatac tgaaagaaa atgagaacc aatggatca 
atgccgacg ttgccgact attcgctca gcagtcttt 
tgggccatt tggactgtc cgtcgaaaa cgaaccaat 
caatggtca gtctttcgc acgacgaca cgcaattgt 
cccaagatg tggatgccc agttacgga ctctgttga 
ttgaaacga gtgtcgact acacggcca aattcgctg 
atctggcag ctcaagttg tggaaaata agaagtaaa 
atagaccaa ttggcacaa acttaatct ttgtacttt 
tatgtttgt taataattt atgtatagc gaaagatat 
tttagcgcg aaaaattta tatttcata aggttgtat 
tatattgca ataaattta acatttgtg a

    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