Status
Please wait ...
Gene information
General information
TC007499 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: 3704199..3710233
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
    		TC007499
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08103

    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: 2 (3 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): less than 30%
    cuticle remnants strongly fragmented (cuticle crumbs) - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva dorsal not closed - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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
    • >TC007499 RA
      MNNVYVKPH TNFLPEAQP HTFYNQVTE NNNQIPTNG 
DKSIAEVWT KYKFDTSNI TASVGNYNK TWATHEDPP 
CEEKEEEVK VEDEPEEEE PKEKEEEVT TSPSHHARR 
PMNAFLIFC KKHRPIVRE RFPNLENRG VTRILGEWW 
ALLDSDDKA PYTGLAKEY KDAFLSANP DFKWYKLPA 
PPLRTLNVR PSAHKVQSP VSSPQHVTE SEFTPGKLA 
DESQLGSLT SLMNNFTPN IKSNENNNN NIEKNGDHD 
YEDVPKSPV NFIKTALPL KPFKKRTFE KCTDNKNVV 
RNIENDISV AQDGNMTNQ DLMDKVVDK IFTKPEDFD 
RKEIRKSGR QCKGKRYEK FMVEGRLLG NKRDGKLTF 
QRSSIENEL TFKLDQPEP ETPNLDHTI KRLAERTNM 
RSVLEPSNQ KSEDRVRTT SENHETNFN LNQRISNLP 
SLSYDVFHQ RKKDSKKRK NRIRTDSES KSKVAKVVK 
EEPPVGSKK RKNKQSITH LKEECVGGD LLALTTLAE 
VAANTEKIN SEPAVLKA
    CDS sequence
    • >TC007499 RA
      atgaataac gtttacgtc aaaccccat acgaatttt 
ttacccgag gcccagcct cacactttt tacaaccaa 
gttaccgaa aacaataac caaatccca accaacggt 
gataaatca atcgcagaa gtttggacg aaatataaa 
ttcgacacg agtaacatt actgcgagc gtcggtaat 
tacaacaag acatgggcg acccatgag gaccccccg 
tgcgaagaa aaagaagaa gaagtgaaa gtcgaagat 
gagccggaa gaggaagag ccgaaagaa aaggaagag 
gaagtgacc acctcgccc tcacaccac gcgaggcga 
cccatgaac gccttcctg attttctgc aaaaagcat 
cggcccatc gtccgggag cggttcccg aatttggag 
aatcggggg gtcactagg atactcggg gagtggtgg 
gcgttgctg gacagcgac gacaaggcc ccctacaca 
ggcctagcc aaagagtac aaagatgcg ttcttgagc 
gccaacccg gacttcaaa tggtacaaa cttccggct 
ccaccgctg cggacgttg aacgttcgg ccttcagcc 
cacaaagtc cagtcaccg gtttctagt ccacaacac 
gtgaccgag tccgaattt actcccggg aaactggcc 
gacgagtcc caattgggg agtctaacg tcgttgatg 
aacaatttt acgccgaat atcaaatca aacgagaat 
aataacaat aatatcgag aaaaacggc gatcacgat 
tacgaggat gtgccgaaa agtccagtc aatttcatt 
aaaactgct ctacctctt aaacctttc aagaaacgg 
acgtttgag aagtgtact gacaataag aacgtcgtc 
cggaacatt gaaaacgac atatcggtg gcacaggat 
ggcaacatg acaaatcag gatctgatg gacaaggtg 
gtcgacaag atcttcacc aaacccgag gatttcgac 
agaaaggaa attcgaaaa tcgggccgc cagtgcaag 
ggcaagcgg tacgagaag ttcatggtg gagggccgc 
ctcttgggc aacaaacgc gacggcaag ctgactttc 
cagcgcagc tcgatcgag aacgagctc accttcaag 
ctggaccag ccggaaccg gaaacacca aacctagat 
cacaccatc aaacgccta gccgaacgg accaacatg 
cgaagcgtc ctcgaaccg tcgaaccaa aagagcgaa 
gaccgcgtc cgcaccacc tccgagaac cacgaaacc 
aacttcaac ctcaaccaa cgtatcagc aatttgccg 
agtctgagc tacgacgta ttccaccaa aggaaaaag 
gacagcaag aagcggaag aatcggata aggaccgac 
agcgagtcc aagagcaaa gtggccaag gtggtgaaa 
gaggagccg cctgtcggc tcgaagaag cggaaaaac 
aagcagagc atcacgcat ttgaaggag gagtgcgtt 
ggaggcgac ttgctggcg ctgacgacg ttggcggag 
gtggcggcc aacacggag aagatcaac tcggaaccg 
gcggttttg aaggcttaa
    mRNA sequence
    • >TC007499 RA
      cgcccacac gattgaaac aattgacgg tcgcccgtc 
cgtaacata ttgggggtg tgttgcgaa aaattcgat 
tgtttttcg ggggtagtc cgtctggaa aactgtgtc 
acaaggcca aattttcat acacaaagg ggaaaaaat 
ccgcgaatg aaattcatt gtcatgcgt ggtggggat 
aaagtgggg aacagctga caagtgaca aactaaaca 
ttacggaca tcttgcaaa tcgcagcag gcgtcgagt 
ttgctccat tgtttttac tatgacaga aacgtaata 
agtgggtgt catccagct atatgtgac cagtccggg 
gttgttttt cttttgttt gtttcacag tgtactgtc 
attttcccg tataatctc aaactggtg cgtgacgtc 
atgtgattg cgttttcat ggagtgcta gattaagat 
ggaaagtca ctagacgca aaatgaatt acttaacaa 
tgaataacg tttacgtca aaccccata cgaattttt 
tacccgagg cccagcctc acacttttt acaaccaag 
ttaccgaaa acaataacc aaatcccaa ccaacggtg 
ataaatcaa tcgcagaag tttggacga aatataaat 
tcgacacga gtaacatta ctgcgagcg tcggtaatt 
acaacaaga catgggcga cccatgagg accccccgt 
gcgaagaaa aagaagaag aagtgaaag tcgaagatg 
agccggaag aggaagagc cgaaagaaa aggaagagg 
aagtgacca cctcgccct cacaccacg cgaggcgac 
ccatgaacg ccttcctga ttttctgca aaaagcatc 
ggcccatcg tccgggagc ggttcccga atttggaga 
atcgggggg tcactagga tactcgggg agtggtggg 
cgttgctgg acagcgacg acaaggccc cctacacag 
gcctagcca aagagtaca aagatgcgt tcttgagcg 
ccaacccgg acttcaaat ggtacaaac ttccggctc 
caccgctgc ggacgttga acgttcggc cttcagccc 
acaaagtcc agtcaccgg tttctagtc cacaacacg 
tgaccgagt ccgaattta ctcccggga aactggccg 
acgagtccc aattgggga gtctaacgt cgttgatga 
acaatttta cgccgaata tcaaatcaa acgagaata 
ataacaata atatcgaga aaaacggcg atcacgatt 
acgaggatg tgccgaaaa gtccagtca atttcatta 
aaactgctc tacctctta aacctttca agaaacgga 
cgtttgaga agtgtactg acaataaga acgtcgtcc 
ggaacattg aaaacgaca tatcggtgg cacaggatg 
gcaacatga caaatcagg atctgatgg acaaggtgg 
tcgacaaga tcttcacca aacccgagg atttcgaca 
gaaaggaaa ttcgaaaat cgggccgcc agtgcaagg 
gcaagcggt acgagaagt tcatggtgg agggccgcc 
tcttgggca acaaacgcg acggcaagc tgactttcc 
agcgcagct cgatcgaga acgagctca ccttcaagc 
tggaccagc cggaaccgg aaacaccaa acctagatc 
acaccatca aacgcctag ccgaacgga ccaacatgc 
gaagcgtcc tcgaaccgt cgaaccaaa agagcgaag 
accgcgtcc gcaccacct ccgagaacc acgaaacca 
acttcaacc tcaaccaac gtatcagca atttgccga 
gtctgagct acgacgtat tccaccaaa ggaaaaagg 
acagcaaga agcggaaga atcggataa ggaccgaca 
gcgagtcca agagcaaag tggccaagg tggtgaaag 
aggagccgc ctgtcggct cgaagaagc ggaaaaaca 
agcagagca tcacgcatt tgaaggagg agtgcgttg 
gaggcgact tgctggcgc tgacgacgt tggcggagg 
tggcggcca acacggaga agatcaact cggaaccgg 
cggttttga aggcttaag aaattgatt ttcgcaata 
attatggtt attccatgt actttatcg ggtattcta 
gatgcatgt gcctctaac gtaattcaa aatataaac 
aggaagtca catttctat tcggcgagc atttcaaga 
gccttattc ccaagtatt agaattgtg atagctgtg 
tattttttg aaggctacc tatatgtta agttttttt 
tgtaatata gtcgttatg tttgttgtt atgtgttag 
ccattttct aatcattta gaaccaaaa tcgttatca 
cgttttaat tttattgag tatgtttat gttatttgt 
agattttaa taagcgcaa taattttaa tgagatttc 
atgttatgt tgtatgatc tgaccgtta gatctttgt 
ttttttctt gagttagag attattatc ttgcactaa 
tattcattc tagttgtaa gaaataata cttccttag 
tcattttgt acaattatg aactagtct caaatttca 
gcgtcagta ttcaattgg ttctttctc aacttcttc 
agttcataa ttgtccaac taaagcgac caaatataa 
ttaatattt taacaatct aagccttat agttgtagt 
ttttaagat gaaaaacaa attatccac gttttatca 
tttaaaaat aaattttat aaaagtact atgtgattg 
accaattgt taatcgatc ttttgttct tatcagatt 
tatggaatt gtaaggtac agacgtgat gcttggaat 
gtgatactt tatttttct atcatgaaa tggacaggg 
atataaaga tttatttat atgattgta tagattgtg 
cctttttat ttatttata aatatttaa aatttatgc 
ctttagaaa ggtaatcaa atatgtatc gattttaat 
aaagtttat tacgtaac

    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