Status
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Gene information
General information
TC007470 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: 4040766..4049514
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
    		TC007470
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01198

    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)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007470 RA
      MSCTKEEIV KCCASDARD AKYALNNND FAKHRFPKK 
QAVDVRFEN ITYTTWSWS MTRFQKETK RILHGVSGL 
FKAGEISVI MGPSGAGKT TLLNILAGF TTRGSAGVV 
KLNDTIRDK SPRFRKLSA YIPQDEELR MALTVKEAM 
TFAANLKLG YSVSNDYKK QQVLELLEM LGLENSHHT 
LTSRLSGGQ RKRLAVALE LLSNPPILY LDEPTTGLD 
SSSCTQCVS LLKRLAQEG RTIICTIHQ PSALLFEMF 
DKLYALSAG RCIYDGNTK DLVPHLSSL GLQCPPYHN 
PADFMMEVA IGEYGTDMN VLAEAAKVK QFDKIGEST 
KEKESMSCS LFDEIKPEE KAHDKSPLP AAVVMQFLL 
LYKRNLLTT KRGYIYFIN RLLAHVAIG LIFGYLYKD 
VGFGANTIL ANYVYLYGS LLLIVYTGK MSVTISFPL 
EMKILTREH FNRWYKLTP YLLSVILIE IPFQVICTW 
TYIAISYWL TAQPVDFRL YLFILFCTL STLCAQSWG 
YFIGATTPI KVAVFLGPV IACLFSVFG FCIRFFDTP 
YFFRWLFHV SYYRAGFQG IVYSIYGLN RPELYCPEE 
AIYCHYSDP TNFLKEMDI VDVDLVSNI SVIVVIWCL 
MNAATYLTL WIKLNKR
    CDS sequence
    • >TC007470 RA
      atgtcctgc actaaagag gagatcgtc aagtgctgt 
gccagcgac gcccgcgac gccaaatac gccctgaac 
aacaatgac ttcgccaaa caccgcttc ccgaaaaaa 
caggccgtc gacgtccga ttcgaaaac atcacatat 
accacatgg agttggtcc atgacccgc tttcaaaaa 
gaaacgaaa cgcatcctt catggcgtt tccggcctt 
ttcaaagcc ggagagatc tcggtgatt atgggacca 
tcgggcgct ggcaaaacg actctactt aatatctta 
gccggattc acgacgcgt ggcagcgcc ggagtcgtg 
aaactgaac gatacgatc cgtgacaag agcccgcgt 
ttccggaag ttgtccgcg tacatcccc caggacgag 
gaacttcgc atggctttg acagtcaag gaggcaatg 
accttcgcc gcaaatctg aaactagga tattccgtt 
tcgaatgat tacaaaaaa cagcaggtg ttggagctt 
ttggaaatg ctgggtttg gagaacagc caccacacg 
ctgacttcg cgcctctcc gggggccag cggaaacgc 
ttagcggtg gctttggag ctgttgagc aatccaccg 
attttgtat ctcgatgaa ccgacgacc ggtttggat 
agctcgtcg tgcacgcaa tgtgtttca cttttgaaa 
cggctggcg caggaagga aggaccatc atttgcacc 
atccaccag ccgtcggcg ctgcttttc gaaatgttc 
gacaagctg tacgccctg tcggcgggg cggtgcatc 
tacgacggc aacacgaag gacctggtg ccccatttg 
tccagtctg gggctccag tgccccccg taccacaac 
ccggccgat ttcatgatg gaagtcgcc attggagaa 
tacggaact gacatgaac gtcttagcc gaggcggcg 
aaagttaaa cagttcgat aagatcggc gaaagtacc 
aaagaaaaa gaatccatg tcgtgcagc ctatttgac 
gaaatcaag ccggaagag aaggctcac gacaagtcg 
ccactaccg gccgctgta gtaatgcag ttcttatta 
ttatacaaa cggaatttg ttgacgacg aaacggggt 
tatatttac ttcattaat cggttattg gcccacgtg 
gccattggg ttaattttc ggctatctc tacaaggac 
gttggtttt ggggccaac acaattcta gccaactac 
gtttatctc tacggatcg ttacttctg attgtgtac 
accggaaaa atgtcagtc acaatatca ttccccctt 
gaaatgaaa atcttgacg cgggagcac ttcaatcgg 
tggtacaaa ctgaccccc tacttactc tctgtgata 
ttaatcgaa atcccgttt caagtgatt tgcacttgg 
acgtacatc gcgatcagt tactggctg acggcacaa 
cccgtagat ttccgtttg tatttattc atcctgttt 
tgcaccctt tccacgctc tgcgcccag tcctggggc 
tacttcatc ggggccacg acccccatc aaagttgca 
gtatttctc ggcccagtg atcgcctgt cttttctcc 
gtgttcggc ttctgtatt cgatttttc gacactccg 
tactttttc cggtggttg ttccacgtg agctactac 
agggcgggc tttcaaggg attgtttac tcgatctat 
ggcctgaat cggcccgaa ttgtactgt cccgaggag 
gcgatttac tgtcactat tccgacccc acaaacttt 
ttgaaagag atggatatt gtcgatgtg gacctggtg 
tccaacatt tctgtgatt gtcgtgatc tggtgcttg 
atgaatgcg gcgacgtac ctcaccttg tggattaag 
ctgaataag cgctaa
    mRNA sequence
    • >TC007470 RA
      acccagcac ttgcatcga taacaaact caaactcgc 
aaactgttc catttcatt agtagtgcc ttagaggtg 
cgatgatct actttttaa atgttttaa gaacggtgg 
gatgttatc ttgagtgaa agcatgtcc tgcactaaa 
gaggagatc gtcaagtgc tgtgccagc gacgcccgc 
gacgccaaa tacgccctg aacaacaat gacttcgcc 
aaacaccgc ttcccgaaa aaacaggcc gtcgacgtc 
cgattcgaa aacatcaca tataccaca tggagttgg 
tccatgacc cgctttcaa aaagaaacg aaacgcatc 
cttcatggc gtttccggc cttttcaaa gccggagag 
atctcggtg attatggga ccatcgggc gctggcaaa 
acgactcta cttaatatc ttagccgga ttcacgacg 
cgtggcagc gccggagtc gtgaaactg aacgatacg 
atccgtgac aagagcccg cgtttccgg aagttgtcc 
gcgtacatc ccccaggac gaggaactt cgcatggct 
ttgacagtc aaggaggca atgaccttc gccgcaaat 
ctgaaacta ggatattcc gtttcgaat gattacaaa 
aaacagcag gtgttggag cttttggaa atgctgggt 
ttggagaac agccaccac acgctgact tcgcgcctc 
tccgggggc cagcggaaa cgcttagcg gtggctttg 
gagctgttg agcaatcca ccgattttg tatctcgat 
gaaccgacg accggtttg gatagctcg tcgtgcacg 
caatgtgtt tcacttttg aaacggctg gcgcaggaa 
ggaaggacc atcatttgc accatccac cagccgtcg 
gcgctgctt ttcgaaatg ttcgacaag ctgtacgcc 
ctgtcggcg gggcggtgc atctacgac ggcaacacg 
aaggacctg gtgccccat ttgtccagt ctggggctc 
cagtgcccc ccgtaccac aacccggcc gatttcatg 
atggaagtc gccattgga gaatacgga actgacatg 
aacgtctta gccgaggcg gcgaaagtt aaacagttc 
gataagatc ggcgaaagt accaaagaa aaagaatcc 
atgtcgtgc agcctattt gacgaaatc aagccggaa 
gagaaggct cacgacaag tcgccacta ccggccgct 
gtagtaatg cagttctta ttattatac aaacggaat 
ttgttgacg acgaaacgg ggttatatt tacttcatt 
aatcggtta ttggcccac gtggccatt gggttaatt 
ttcggctat ctctacaag gacgttggt tttggggcc 
aacacaatt ctagccaac tacgtttat ctctacgga 
tcgttactt ctgattgtg tacaccgga aaaatgtca 
gtcacaata tcattcccc cttgaaatg aaaatcttg 
acgcgggag cacttcaat cggtggtac aaactgacc 
ccctactta ctctctgtg atattaatc gaaatcccg 
tttcaagtg atttgcact tggacgtac atcgcgatc 
agttactgg ctgacggca caacccgta gatttccgt 
ttgtattta ttcatcctg ttttgcacc ctttccacg 
ctctgcgcc cagtcctgg ggctacttc atcggggcc 
acgaccccc atcaaagtt gcagtattt ctcggccca 
gtgatcgcc tgtcttttc tccgtgttc ggcttctgt 
attcgattt ttcgacact ccgtacttt ttccggtgg 
ttgttccac gtgagctac tacagggcg ggctttcaa 
gggattgtt tactcgatc tatggcctg aatcggccc 
gaattgtac tgtcccgag gaggcgatt tactgtcac 
tattccgac cccacaaac tttttgaaa gagatggat 
attgtcgat gtggacctg gtgtccaac atttctgtg 
attgtcgtg atctggtgc ttgatgaat gcggcgacg 
tacctcacc ttgtggatt aagctgaat aagcgctaa 
ctaatgaaa tttttattt atttgaaga ccaaagact 
tgtaacgtg gagtaaatg tgttcgcca ccgacgttg 
gtattaatt aatttcaag tgtattatt ttacgttta 
gaacgtggt tttagttat ttaactcgt ttctgggtt 
aaaataagt ttctcaact agtcacttt agattgtag 
attggtgga atatttaaa aggaaactt gccattagg 
cttattttt ataatgtag agtcgatgt gatagcttt 
ttgtatttt aatcaaata aatgacatt ttttcca

    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