Status
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Gene information
General information
TC013747 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_007420.3: 4859435..4864546
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
    		TC013747
    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 *
    {{ 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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02197

    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: 2 (3 dpi)
    Days post injection

    beetle stock: bad (increased lethality), adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Pupal morphology
    beetle stock: bad (increased lethality),
    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 3
    vitellogenic egg chamber late number increased - Number of animals showing the phenotype: 1

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 larval musculature partially not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature potentially degenerated - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     larva appendages shortened - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not closed - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen not closed - 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): less than 30%
    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: 0.0% (includes death as larva, prepupa, pupa, adult)

    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013747 RA
      MAEYQPLFG VWDYVVLVI VLLISSSIG VYYRFTGGK 
QKTMQEYLL ADKNMSITP VAFSLMASF MSAITLLGV 
SSENYTFGI QFIVINISY GIFTPVAAY LYLPVFFKL 
QATSAYEYL EKRFGKASR LAASLSYSL QMTLYMGVV 
LYAPALALE ALTGISKVA AILSVGLVC TFYSTIGGM 
KAVLMTDVF QSILMFAAV FSIIIFAAI DKGSLAEIW 
RIAERGNRT ELLNFNPDP TERHSWFSL IIGGGITFL 
SLYAVNQTQ VQRYLTVKD LKTAQKALW LNWPILTCL 
SLSTSFAGL AMYSKYYSC DPVSAKIIN SADQLMPLY 
VMDTMGNIP GLAGLFVAG IFSASLSTV SAALNSLAA 
VTVEDYYKP LYQYIAKKP LSEKRVSVQ TKLIALFFG 
FACLAIAFL AQFLGGVLQ ASLTIFGVI GGPLLALFS 
LGMFTTTAN EKGALVGLV SGISLALWM AFGNPKPPL 
PTLPVTTEG CADVFSNIS ITNEPLVNN PDNKEYFWL 
YKVSYLYNG VFGLVTTFL VGYLISLVI NSIYGRKDQ 
HLDPNLFIP PIQRKLQKR ELSLSMKQW SESEEDLRS 
KHVLKRKY
    CDS sequence
    • >TC013747 RA
      atggccgag tatcaacca cttttcggt gtttgggac 
tatgttgtc ctagtgatt gttttatta atttcctcc 
agtatcgga gtttattat agatttacc ggaggtaaa 
cagaaaaca atgcaggag tatttattg gccgataaa 
aacatgtct ataacaccg gtcgctttc tccctcatg 
gcttctttc atgtcagca atcacacta ttaggtgtc 
tccagcgaa aattacact ttcggtatc caattcatc 
gtaatcaac atttcttac ggtattttc acgccagtg 
gcggcgtat ttatacctc cctgttttc ttcaaacta 
caagcaacg agcgcatat gagtatttg gaaaaaaga 
ttcggcaaa gcctcacgc ctggcagcc tcgttgtct 
tacagcctc cagatgact ttatacatg ggggtcgtg 
ctctacgcc cctgcttta gcccttgaa gctttaaca 
ggaatcagt aaagttgca gcgatttta tcggttgga 
cttgtttgt acgttttat tcgacgatt ggaggcatg 
aaagcggtc ttgatgacg gacgttttc cagtcgatt 
ttaatgttt gctgcggtg tttagtatt attattttt 
gcggctatt gataaggga agtttggcg gagatttgg 
aggatcgcc gaacgcgga aatcggacc gaattattg 
aacttcaat ccagatccc accgaaagg cattcgtgg 
ttttcgctg ataatcggc gggggaatc acgtttttg 
tcgctttat gccgttaat caaacgcaa gtgcaacga 
tatttgact gtgaaggat ttgaaaacg gcacagaag 
gcgctgtgg ctcaattgg cccattttg acgtgtttg 
agcctcagt acgtccttt gcagggctc gctatgtac 
tcgaaatat tacagttgt gacccagtt tcggccaaa 
atcatcaac agtgctgat cagttaatg cctttgtac 
gtgatggac acaatgggc aacatccct ggactggct 
ggcctcttt gttgctggt attttcagc gcctctctc 
tccaccgtt tcagcagca cttaatagt ttagctgct 
gtaacagtc gaagattac tacaagcct ttgtaccaa 
tacattgct aaaaaacct ttatcggaa aaaagagtc 
tccgttcaa acgaaacta atcgcttta tttttcggc 
ttcgcatgt ttggctatt gccttctta gcccagttt 
ctaggagga gtccttcaa gcctctttg acgatattc 
ggagttatc ggagggccc cttctagcc ctgttctcc 
ctagggatg tttactacc actgccaat gaaaaggga 
gctttggtc ggtcttgtg tcgggtatt tctctggct 
ttgtggatg gcctttggt aaccccaaa ccgcctttg 
ccaacgtta cctgtgacc acggaagga tgtgctgac 
gttttctcg aatattagt attacaaat gagccgtta 
gtgaacaat ccggacaat aaggaatat ttttggctg 
tacaaagtg tcgtattta tacaacggt gttttcgga 
ttagttacc acgttcctt gttggttat ttgatcagt 
ttggtcatt aatagcatt tatgggaga aaagatcaa 
cacttggac ccgaattta tttattcct ccaattcaa 
cgaaagctg caaaagcgg gaattgtcg ctcagtatg 
aagcagtgg tccgaatct gaagaggat ctcagaagc 
aaacacgtg ctgaaacgg aaatattaa
    mRNA sequence
    • >TC013747 RA
      attcaacaa caaatgatt aattcttta cagaaaacc 
tttgaccta cggaatccc tcataattt attcccgta 
accagaaag cgttgattc tattgttta taacaatgc 
atcatttat gagaggaaa aggtcacac aatttggac 
gctttatta acattcatt gatcacaca ttaagtctt 
gacgttggt ataaattgt agttttaaa acattgaca 
atgcactgc tagaaaagt aaaagtgag tatgctaat 
aattttttg cttatcttt actgattgc gacatttta 
ttagatttt attatttaa tccagtatg cttttgtat 
taaaatttt actgctcgc ttaaaaatg cttagcttt 
attttttaa tccagttaa tacccgcga tgtgtggtg 
tcatcactt gatttttta ggtatttgg tgctaaagt 
ctcagattt tgttcataa ataaaaaat aagtttggc 
gtaaacaat ggccgagta tcaaccact tttcggtgt 
ttgggacta tgttgtcct agtgattgt tttattaat 
ttcctccag tatcggagt ttattatag atttaccgg 
aggtaaaca gaaaacaat gcaggagta tttattggc 
cgataaaaa catgtctat aacaccggt cgctttctc 
cctcatggc ttctttcat gtcagcaat cacactatt 
aggtgtctc cagcgaaaa ttacacttt cggtatcca 
attcatcgt aatcaacat ttcttacgg tattttcac 
gccagtggc ggcgtattt atacctccc tgttttctt 
caaactaca agcaacgag cgcatatga gtatttgga 
aaaaagatt cggcaaagc ctcacgcct ggcagcctc 
gttgtctta cagcctcca gatgacttt atacatggg 
ggtcgtgct ctacgcccc tgctttagc ccttgaagc 
tttaacagg aatcagtaa agttgcagc gattttatc 
ggttggact tgtttgtac gttttattc gacgattgg 
aggcatgaa agcggtctt gatgacgga cgttttcca 
gtcgatttt aatgtttgc tgcggtgtt tagtattat 
tatttttgc ggctattga taagggaag tttggcgga 
gatttggag gatcgccga acgcggaaa tcggaccga 
attattgaa cttcaatcc agatcccac cgaaaggca 
ttcgtggtt ttcgctgat aatcggcgg gggaatcac 
gtttttgtc gctttatgc cgttaatca aacgcaagt 
gcaacgata tttgactgt gaaggattt gaaaacggc 
acagaaggc gctgtggct caattggcc cattttgac 
gtgtttgag cctcagtac gtcctttgc agggctcgc 
tatgtactc gaaatatta cagttgtga cccagtttc 
ggccaaaat catcaacag tgctgatca gttaatgcc 
tttgtacgt gatggacac aatgggcaa catccctgg 
actggctgg cctctttgt tgctggtat tttcagcgc 
ctctctctc caccgtttc agcagcact taatagttt 
agctgctgt aacagtcga agattacta caagccttt 
gtaccaata cattgctaa aaaaccttt atcggaaaa 
aagagtctc cgttcaaac gaaactaat cgctttatt 
tttcggctt cgcatgttt ggctattgc cttcttagc 
ccagtttct aggaggagt ccttcaagc ctctttgac 
gatattcgg agttatcgg agggcccct tctagccct 
gttctccct agggatgtt tactaccac tgccaatga 
aaagggagc tttggtcgg tcttgtgtc gggtatttc 
tctggcttt gtggatggc ctttggtaa ccccaaacc 
gcctttgcc aacgttacc tgtgaccac ggaaggatg 
tgctgacgt tttctcgaa tattagtat tacaaatga 
gccgttagt gaacaatcc ggacaataa ggaatattt 
ttggctgta caaagtgtc gtatttata caacggtgt 
tttcggatt agttaccac gttccttgt tggttattt 
gatcagttt ggtcattaa tagcattta tgggagaaa 
agatcaaca cttggaccc gaatttatt tattcctcc 
aattcaacg aaagctgca aaagcggga attgtcgct 
cagtatgaa gcagtggtc cgaatctga agaggatct 
cagaagcaa acacgtgct gaaacggaa atattaatt 
gtattaatt ttgtagcag tacttattt attgtgtac 
acgtgaaaa tgtcttcca ttagataat aaatgccgg 
ttttattga aataaacaa ctttgttag at

    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