Status
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Gene information
General information
TC009184 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_007422.5: 3300076..3323911
Sequence information
Transcripts / Proteins (2) 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
    		TC009184
    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
    {{ 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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04602

    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: 10.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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): more than 80%

    affected eggs/embryos/larvae - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009184 RA
      MNHSNETEL TVEDVLRSF REDNFVVIG LYVPVFVVA 
LLANVLVIW VVIKDQYMR SVTNYFLVN LSVADLLVA 
LVCMPNAAY AAYTSTYSF GEYTCKISA YFQCVSVAS 
SIFTITAMS IDRYLAITK PFGFFNRCF NKRNTVIVI 
LVLWLLSFV LFLPILLVT GTWKMDDIH LFNKSLDIP 
AYFCREDWT TYFGSSGSE MRQALGITW FIFMFVVPG 
MIMLFAYSM MSRTLCSGV PPFDSNDGL SCMQQRNRL 
MRSRKRVAC ILLLLAFVF AGCWMPYHL VSLLDDLNN 
GPYKTLKMN LVLLGHANS ALNPIIYCA LSRKFRRSI 
KDLICIDIH FTRRRQNIQ WGDSSGSGT QLHYLHRIK 
SVPTVHNQL HFTLGRLQS SQKTTKTCV V
    • >TC009184 RB
      MNHSNETEL TVEDVLRSF REDNFVVIG LYVPVFVVA 
LLANVLVIW VVIKDQYMR RFLWCYNSI SRREAVTNY 
FLVNLSVAD LLVALVCMP NAAYAAYTS TYSFGEYTC 
KISAYFQCV SVASSIFTI TAMSIDRYL AITKPFGFF 
NRCFNKRNT VIVILVLWL LSFVLFLPI LLVTGTWKM 
DDIHLFNKS LDIPAYFCR EDWTTYFGS SGSEMRQAL 
GITWFIFMF VVPGMIMLF AYSMMSRTL CSGVPPFDS 
NDGLSCMQQ RNRLMRSRK RVACILLLL AFVFAGCWM 
PYHLVSLLD DLNNGPYKT LKMNLVLLG HANSALNPI 
IYCALSRKF RRSIKDLIC IDIHFTRRR QNIQWGDSS 
GSGTQLHYL HRIKSVPTV HNQLHFTLG RLQSSQKTT 
KTCVV
    CDS sequence
    • >TC009184 RA
      atgaatcac tcaaatgag accgaactg accgtcgaa 
gatgtgctg cgctcgttc cgggaagat aattttgtt 
gtgattgga ctttatgtg ccggtgttt gttgtcgcg 
ctgttggcc aatgtgctc gttatttgg gtcgtcatc 
aaggaccag tatatgaga agcgtcacc aactacttc 
ttagtgaac ttatctgtg gccgacctc ttagtggca 
ctcgtctgt atgcccaat gcggcttac gccgcctac 
acttccacc tacagcttc ggagagtac acctgcaaa 
atatcggcg tatttccaa tgcgtctca gtggcgtcg 
agcatcttc accatcacc gccatgtcc atcgaccgg 
tacctggcc atcaccaag cccttcggc ttcttcaac 
cgctgcttc aacaagcgc aacaccgtc atcgtcatc 
ctcgtcctg tggctcttg tccttcgtc ctcttcctg 
cccatcctg ctggtgacc ggcacgtgg aaaatggac 
gacatccac ctcttcaac aagagcctg gacatcccg 
gcctacttc tgccgcgag gactggacc acctacttc 
ggctcctcg ggctcggag atgcgccaa gcgctcggc 
atcacctgg ttcatcttc atgttcgtg gtgccaggg 
atgataatg ctgttcgcc tactcgatg atgagcagg 
acgctgtgc tcgggggtt ccgcccttt gacagcaac 
gatgggctg tcctgcatg caacagaga aacagacta 
atgaggagc cgcaaacgc gtggcctgc atcctcctg 
ctgctggcg ttcgtgttc gccggctgc tggatgccc 
taccacctg gtgagcctc ctcgacgac ctgaacaac 
ggcccctac aagaccctc aaaatgaac ctagtgctc 
ctcggccac gccaattcc gccctcaac cccatcatc 
tactgcgcc ctttcgcgc aaattccgg cgctccatc 
aaagatctg atttgcatc gatatacat ttcaccaga 
cgccggcaa aatattcag tggggcgac agttccggc 
tcgggcaca caactccat tacttacac aggattaaa 
tcagtgcca actgtgcat aatcagctt catttcacg 
ctcggacgc ctgcagtca agccagaaa acgaccaag 
acgtgcgtg gtttga
    • >TC009184 RB
      atgaatcac tcaaatgag accgaactg accgtcgaa 
gatgtgctg cgctcgttc cgggaagat aattttgtt 
gtgattgga ctttatgtg ccggtgttt gttgtcgcg 
ctgttggcc aatgtgctc gttatttgg gtcgtcatc 
aaggaccag tatatgaga aggtttctg tggtgttac 
aacagcatt tcgcgacgt gaggccgtc accaactac 
ttcttagtg aacttatct gtggccgac ctcttagtg 
gcactcgtc tgtatgccc aatgcggct tacgccgcc 
tacacttcc acctacagc ttcggagag tacacctgc 
aaaatatcg gcgtatttc caatgcgtc tcagtggcg 
tcgagcatc ttcaccatc accgccatg tccatcgac 
cggtacctg gccatcacc aagcccttc ggcttcttc 
aaccgctgc ttcaacaag cgcaacacc gtcatcgtc 
atcctcgtc ctgtggctc ttgtccttc gtcctcttc 
ctgcccatc ctgctggtg accggcacg tggaaaatg 
gacgacatc cacctcttc aacaagagc ctggacatc 
ccggcctac ttctgccgc gaggactgg accacctac 
ttcggctcc tcgggctcg gagatgcgc caagcgctc 
ggcatcacc tggttcatc ttcatgttc gtggtgcca 
gggatgata atgctgttc gcctactcg atgatgagc 
aggacgctg tgctcgggg gttccgccc tttgacagc 
aacgatggg ctgtcctgc atgcaacag agaaacaga 
ctaatgagg agccgcaaa cgcgtggcc tgcatcctc 
ctgctgctg gcgttcgtg ttcgccggc tgctggatg 
ccctaccac ctggtgagc ctcctcgac gacctgaac 
aacggcccc tacaagacc ctcaaaatg aacctagtg 
ctcctcggc cacgccaat tccgccctc aaccccatc 
atctactgc gccctttcg cgcaaattc cggcgctcc 
atcaaagat ctgatttgc atcgatata catttcacc 
agacgccgg caaaatatt cagtggggc gacagttcc 
ggctcgggc acacaactc cattactta cacaggatt 
aaatcagtg ccaactgtg cataatcag cttcatttc 
acgctcgga cgcctgcag tcaagccag aaaacgacc 
aagacgtgc gtggtttga
    mRNA sequence
    • >TC009184 RA
      agtcctcga aacgtcttt gacccaagt gttgtgcta 
gtggagttg cagacgatg ggcacggga acatgggcc 
aaccatggt ctgcggcgg acttttgga aaaatctaa 
tcgagtgaa gtgaaaaaa gtcatgaat cactcaaat 
gagaccgaa ctgaccgtc gaagatgtg ctgcgctcg 
ttccgggaa gataatttt gttgtgatt ggactttat 
gtgccggtg tttgttgtc gcgctgttg gccaatgtg 
ctcgttatt tgggtcgtc atcaaggac cagtatatg 
agaagcgtc accaactac ttcttagtg aacttatct 
gtggccgac ctcttagtg gcactcgtc tgtatgccc 
aatgcggct tacgccgcc tacacttcc acctacagc 
ttcggagag tacacctgc aaaatatcg gcgtatttc 
caatgcgtc tcagtggcg tcgagcatc ttcaccatc 
accgccatg tccatcgac cggtacctg gccatcacc 
aagcccttc ggcttcttc aaccgctgc ttcaacaag 
cgcaacacc gtcatcgtc atcctcgtc ctgtggctc 
ttgtccttc gtcctcttc ctgcccatc ctgctggtg 
accggcacg tggaaaatg gacgacatc cacctcttc 
aacaagagc ctggacatc ccggcctac ttctgccgc 
gaggactgg accacctac ttcggctcc tcgggctcg 
gagatgcgc caagcgctc ggcatcacc tggttcatc 
ttcatgttc gtggtgcca gggatgata atgctgttc 
gcctactcg atgatgagc aggacgctg tgctcgggg 
gttccgccc tttgacagc aacgatggg ctgtcctgc 
atgcaacag agaaacaga ctaatgagg agccgcaaa 
cgcgtggcc tgcatcctc ctgctgctg gcgttcgtg 
ttcgccggc tgctggatg ccctaccac ctggtgagc 
ctcctcgac gacctgaac aacggcccc tacaagacc 
ctcaaaatg aacctagtg ctcctcggc cacgccaat 
tccgccctc aaccccatc atctactgc gccctttcg 
cgcaaattc cggcgctcc atcaaagat ctgatttgc 
atcgatata catttcacc agacgccgg caaaatatt 
cagtggggc gacagttcc ggctcgggc acacaactc 
cattactta cacaggatt aaatcagtg ccaactgtg 
cataatcag cttcatttc acgctcgga cgcctgcag 
tcaagccag aaaacgacc aagacgtgc gtggtttga 
acacccaag ccctggttc aatacttgt gtgggacac 
cctgtacat aagcccgtt ttgtttcag aaaaatcga 
aaaatttgg gctcaaaca gtcaggttt ttcgattcg 
tcgaccata tcacgtatt tttataccg gcctagctg 
tagttttaa gacttttgt gtaaaaatg tttaatgtt 
atacagggt gagtcattt gtgcggcgt ccgaaaata 
ccgactttc ttaacaaaa atcactaaa ctatttgtt 
tttgtcata cggggtgtt ttggataag tgatttaat 
tttttgcac tagaatttg caataagga agtgggtat 
cgtccaggg ctgctttat gccccaccc tgtagataa 
gcaagatac gctttgcat ttccaactc ggcctctgg 
cctctcatc atcaccatt cttgctact ctctgttcg 
atgttcatg tctgtgatt ttcttaatg tatttctgt 
tattactat tacttaata aatatgttt ttttatt
    • >TC009184 RB
      agtcctcga aacgtcttt gacccaagt gttgtgcta 
gtggagttg cagacgatg ggcacggga acatgggcc 
aaccatggt ctgcggcgg acttttgga aaaatctaa 
tcgagtgaa gtgaaaaaa gtcatgaat cactcaaat 
gagaccgaa ctgaccgtc gaagatgtg ctgcgctcg 
ttccgggaa gataatttt gttgtgatt ggactttat 
gtgccggtg tttgttgtc gcgctgttg gccaatgtg 
ctcgttatt tgggtcgtc atcaaggac cagtatatg 
agaaggttt ctgtggtgt tacaacagc atttcgcga 
cgtgaggcc gtcaccaac tacttctta gtgaactta 
tctgtggcc gacctctta gtggcactc gtctgtatg 
cccaatgcg gcttacgcc gcctacact tccacctac 
agcttcgga gagtacacc tgcaaaata tcggcgtat 
ttccaatgc gtctcagtg gcgtcgagc atcttcacc 
atcaccgcc atgtccatc gaccggtac ctggccatc 
accaagccc ttcggcttc ttcaaccgc tgcttcaac 
aagcgcaac accgtcatc gtcatcctc gtcctgtgg 
ctcttgtcc ttcgtcctc ttcctgccc atcctgctg 
gtgaccggc acgtggaaa atggacgac atccacctc 
ttcaacaag agcctggac atcccggcc tacttctgc 
cgcgaggac tggaccacc tacttcggc tcctcgggc 
tcggagatg cgccaagcg ctcggcatc acctggttc 
atcttcatg ttcgtggtg ccagggatg ataatgctg 
ttcgcctac tcgatgatg agcaggacg ctgtgctcg 
ggggttccg ccctttgac agcaacgat gggctgtcc 
tgcatgcaa cagagaaac agactaatg aggagccgc 
aaacgcgtg gcctgcatc ctcctgctg ctggcgttc 
gtgttcgcc ggctgctgg atgccctac cacctggtg 
agcctcctc gacgacctg aacaacggc ccctacaag 
accctcaaa atgaaccta gtgctcctc ggccacgcc 
aattccgcc ctcaacccc atcatctac tgcgccctt 
tcgcgcaaa ttccggcgc tccatcaaa gatctgatt 
tgcatcgat atacatttc accagacgc cggcaaaat 
attcagtgg ggcgacagt tccggctcg ggcacacaa 
ctccattac ttacacagg attaaatca gtgccaact 
gtgcataat cagcttcat ttcacgctc ggacgcctg 
cagtcaagc cagaaaacg accaagacg tgcgtggtt 
tgaacaccc aagccctgg ttcaatact tgtgtggga 
caccctgta cataagccc gttttgttt cagaaaaat 
cgaaaaatt tgggctcaa acagtcagg tttttcgat 
tcgtcgacc atatcacgt atttttata ccggcctag 
ctgtagttt taagacttt tgtgtaaaa atgtttaat 
gttatacag ggtgagtca tttgtgcgg cgtccgaaa 
ataccgact ttcttaaca aaaatcact aaactattt 
gtttttgtc atacggggt gttttggat aagtgattt 
aattttttg cactagaat ttgcaataa ggaagtggg 
tatcgtcca gggctgctt tatgcccca ccctgtaga 
taagcaaga tacgctttg catttccaa ctcggcctc 
tggcctctc atcatcacc attcttgct actctctgt 
tcgatgttc atgtctgtg attttctta atgtatttc 
tgttattac tattactta ataaatatg tttttttat 
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    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