Status
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Gene information
General information
TC006470 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_007423.3: 10174801..10177159
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
    		TC006470
    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_04150

    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: 50.0% (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

    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection

    Fertility
    previtellogenic egg chamber slightly number decreased - Number of animals showing the phenotype: 4

    egg chamber shape rounded - 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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 80.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 4 (16 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 2 (41 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006470 RA
      MGGKFESLR VEYQDVLRK SFKTKTTDL IETKAKHLS 
KSAIDLKAP LDQAFRDVL LELLEKEVN VSVLRELVD 
FSVLTCRKE LSNPTMPVM LLSDIFDAL TLDACQEMF 
LYVENNVEV WKENLFFSC CKNNLLRLC NDLLRRLSR 
STATVFCGR ILLFLAKFF PFSERSGLN IVSEFNLEN 
TTEYGTDSS QEKGGDVDG DEKKNVIDF TFYCKFWSL 
QDFFRNPNQ LYTKVQWKL FCTYATSVF NTFQGLKLE 
HVENNGSYC DESKNKMYF SKYLTSQKL LDLQLYDVN 
FRRAVLLQF LILFQYLSS SVKFKSESF ELKSDQKEW 
IQSSTEKVY SLLRETPPD GKRFAEIAS NILSREEYW 
NAWKNDGCP ELKKSVVPT ESPDKRRTE ERPLLGDII 
KQASSEGKY YMGSTELTK LWNLCPDNL EACKGRERD 
FLPTLEDYF ADAIAQIES PGAVKDEDN LLKDGNYGW 
RALRLLAKR SPHFFTYST VIMNPLSSY LEMMVKKIA 
HDKPGRVTE NSQESQQND AEEENLFKD TQVDENTED 
IKPSETEEF MDDKNARVE HKLNPNQLQ LFSEKVAPN 
WKKLASKLG FKTDEIQFF SMENEKEVD QARNMLQLW 
FDDDEDATL DNFLYILEG LEMEEAAEI VRNEINSMD 
S
    CDS sequence
    • >TC006470 RA
      atggggggc aaattcgag tcgttacgg gtcgaatac 
caggacgtt ttacgcaaa tctttcaag accaaaacc 
accgatttg atcgaaact aaagccaaa cacttgtcg 
aagtccgcc atcgacctt aaggcccct ctggaccag 
gcgttccgc gacgtctta ctcgaactc cttgaaaag 
gaagtcaac gtctcagtc ttacgcgag ttggtcgat 
tttagcgtc ctaacatgt cgcaaggaa ctgagcaac 
cccacaatg ccagtgatg ctcctttcg gacattttt 
gacgcctta acgctggac gcctgtcag gaaatgttc 
ctctacgta gagaacaat gtcgaagtg tggaaagag 
aacttgttt ttcagttgt tgcaaaaat aatttactc 
aggttgtgt aacgactta ttgaggcgg ttatctcgg 
tccacggcg accgttttt tgcggccga attctcctc 
tttttggcc aagtttttc ccgttttct gaacgttca 
ggtttgaat attgtgagc gaatttaat ttggaaaac 
acgacagag tatggcacg gactcgagc caggaaaag 
gggggcgac gttgacggc gacgaaaag aaaaacgtg 
atcgatttc acgttttat tgcaagttt tggtcgctc 
caggatttt ttccggaac cccaaccag ttgtacact 
aaagtgcaa tggaaactg ttttgcacc tacgccacg 
agtgtcttt aacacgttc caaggcctc aagcttgaa 
cacgtggaa aataacggg agctattgt gacgaaagt 
aaaaataaa atgtacttt tccaagtac ctgacgagc 
caaaaattg ctcgacttg caactgtac gacgtcaat 
tttcggcgc gccgtcctg ttgcagttt ttaatttta 
ttccagtac ctttcatca tccgtaaaa tttaaatcc 
gaaagtttc gagttaaag tcggaccaa aaagagtgg 
atccaatca agcaccgaa aaagtctac agtttgtta 
cgcgagact cctccagac ggtaaacga tttgccgaa 
atcgcctca aatattcta agtcgggag gagtattgg 
aacgcttgg aagaacgac ggttgtccc gaactgaaa 
aaatcggtg gttcccacg gaaagcccc gacaagcgc 
cgaaccgaa gagcgccct ctcttaggc gacatcatt 
aaacaggcc tccagtgag ggcaaatac tacatggga 
agcaccgaa ctgaccaaa ctgtggaac ctatgcccc 
gataacttg gaggcttgt aaaggccga gagcgcgat 
tttctcccc acacttgag gattatttc gccgatgcc 
atcgcccaa atcgagtca cctggcgca gtcaaagac 
gaagacaat ttactgaaa gatgggaat tacgggtgg 
cgggctttg agactcttg gctaagcgc agcccccac 
tttttcacc tacagtact gtgattatg aaccccctg 
tcttcgtat ttggagatg atggtcaag aaaatagcg 
catgataag ccaggtcgc gtgaccgaa aattcgcaa 
gagtcgcaa caaaacgac gccgaggaa gaaaatttg 
tttaaggac acgcaagtt gatgaaaac accgaagac 
atcaaaccg tccgaaacg gaggaattt atggacgat 
aagaacgcg cgagtcgag cataaatta aacccgaac 
cagttgcaa ctcttcagc gagaaagtg gcccccaat 
tggaaaaaa ctagccagc aagttgggc ttcaaaact 
gacgaaatc cagttcttc agtatggaa aatgagaaa 
gaggtggac caggcccgt aatatgcta caactgtgg 
ttcgatgac gacgaagat gccactttg gacaacttc 
ttgtacatt ttggaaggg ttggagatg gaggaggcg 
gcggaaatt gtccgaaat gaaatcaat tcgatggat 
tcctaa
    mRNA sequence
    • >TC006470 RA
      tctaacatt atttttgac ctttgacag ttgtttaca 
agacgattc cggtcgctt attcaagta tttcacacg 
aaattgagc gtttttcac gttgggggc cctccaagc 
gttgcattt aagcaatgg ggggcaaat tcgagtcgt 
tacgggtcg aataccagg acgttttac gcaaatctt 
tcaagacca aaaccaccg atttgatcg aaactaaag 
ccaaacact tgtcgaagt ccgccatcg accttaagg 
cccctctgg accaggcgt tccgcgacg tcttactcg 
aactccttg aaaaggaag tcaacgtct cagtcttac 
gcgagttgg tcgatttta gcgtcctaa catgtcgca 
aggaactga gcaacccca caatgccag tgatgctcc 
tttcggaca tttttgacg ccttaacgc tggacgcct 
gtcaggaaa tgttcctct acgtagaga acaatgtcg 
aagtgtgga aagagaact tgtttttca gttgttgca 
aaaataatt tactcaggt tgtgtaacg acttattga 
ggcggttat ctcggtcca cggcgaccg ttttttgcg 
gccgaattc tcctctttt tggccaagt ttttcccgt 
tttctgaac gttcaggtt tgaatattg tgagcgaat 
ttaatttgg aaaacacga cagagtatg gcacggact 
cgagccagg aaaaggggg gcgacgttg acggcgacg 
aaaagaaaa acgtgatcg atttcacgt tttattgca 
agttttggt cgctccagg attttttcc ggaacccca 
accagttgt acactaaag tgcaatgga aactgtttt 
gcacctacg ccacgagtg tctttaaca cgttccaag 
gcctcaagc ttgaacacg tggaaaata acgggagct 
attgtgacg aaagtaaaa ataaaatgt acttttcca 
agtacctga cgagccaaa aattgctcg acttgcaac 
tgtacgacg tcaattttc ggcgcgccg tcctgttgc 
agtttttaa ttttattcc agtaccttt catcatccg 
taaaattta aatccgaaa gtttcgagt taaagtcgg 
accaaaaag agtggatcc aatcaagca ccgaaaaag 
tctacagtt tgttacgcg agactcctc cagacggta 
aacgatttg ccgaaatcg cctcaaata ttctaagtc 
gggaggagt attggaacg cttggaaga acgacggtt 
gtcccgaac tgaaaaaat cggtggttc ccacggaaa 
gccccgaca agcgccgaa ccgaagagc gccctctct 
taggcgaca tcattaaac aggcctcca gtgagggca 
aatactaca tgggaagca ccgaactga ccaaactgt 
ggaacctat gccccgata acttggagg cttgtaaag 
gccgagagc gcgattttc tccccacac ttgaggatt 
atttcgccg atgccatcg cccaaatcg agtcacctg 
gcgcagtca aagacgaag acaatttac tgaaagatg 
ggaattacg ggtggcggg ctttgagac tcttggcta 
agcgcagcc cccactttt tcacctaca gtactgtga 
ttatgaacc ccctgtctt cgtatttgg agatgatgg 
tcaagaaaa tagcgcatg ataagccag gtcgcgtga 
ccgaaaatt cgcaagagt cgcaacaaa acgacgccg 
aggaagaaa atttgttta aggacacgc aagttgatg 
aaaacaccg aagacatca aaccgtccg aaacggagg 
aatttatgg acgataaga acgcgcgag tcgagcata 
aattaaacc cgaaccagt tgcaactct tcagcgaga 
aagtggccc ccaattgga aaaaactag ccagcaagt 
tgggcttca aaactgacg aaatccagt tcttcagta 
tggaaaatg agaaagagg tggaccagg cccgtaata 
tgctacaac tgtggttcg atgacgacg aagatgcca 
ctttggaca acttcttgt acattttgg aagggttgg 
agatggagg aggcggcgg aaattgtcc gaaatgaaa 
tcaattcga tggattcct aactgtatt taactcgtt 
tcgccctat ttttacttt tcaatttgc gtttcatat 
gtaattgtt tgtgatcaa ccttgggac agtcccgtt 
ttttgtgcc ccggttgtt tacagtgga aacaatcct 
ttaataaaa ttattaaac cttg

    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