Status
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Gene information
General information
TC008876 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: 11267500..11276286
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
    		TC008876
    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
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    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
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    Name
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    Email
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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04557

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     legs shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen posterior thinner - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen partiallyeverted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection

    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008876 RA
      MSCNSNPTS TCSSASNCN DMDSLVCNI ISVALQDIC 
GNCDEGAKA TSRCIDCSE LLCDPCVRA HQRVRVTKD 
HRINKFSNN LVSSPTTID SAVCSPETR NSPCAAINT 
ICDIHREPN RLFCATCYT PACSDCVLS DHVSHELSY 
VQECDNTIL MHTKLNNET RSAMTAVAE AMENVKFMS 
TKIHLKLQK TTVDVQNVF KKYVTALER RAQELVSKI 
EQIQRFKAY RLLSQMERL RLAQARLTY VSNILNASF 
ASATNSEFI IANEKAYNE LKSIRSVQA ELVPCEDDY 
IRFTAVDNG LFSAINSLG NINTSSAMS WGPEPSTPL 
ATEILKMSD INQNCRPLY GVVDQVSVK HVGSASPMI 
FAKEGVEDG QLCRPWGVC CNSLGHIIV TDRSNNRIQ 
VFDSNGKFL YKFGKQGSG LGQFERPAG ITVSPVNHI 
VVADKDNHR IQIFKMDGT FILTFGEKG TQNGQFNYP 
WDVACNSQG DIVVSDTRN HRIQLFTGA GAFINKYGF 
EGNSSMWKF FDCPRGVCF TPAGNVMVT DFNNHRIVI 
IDKDFVRAQ FLGEEGSKD KQFLRPQGI ICDDQGNIV 
VADSKNHRI QVFDSFGNF LFQLGRPGK GPGEFDRPS 
GLCLSPTGR IIVVDFANA RVQVF
    CDS sequence
    • >TC008876 RA
      atgtcttgc aacagtaac ccaacatcc acgtgctcg 
tctgcatcg aactgcaac gacatggac agtttggtc 
tgcaacatc atatcggtg gctttgcaa gacatatgt 
gggaactgc gatgaagga gccaaagca acatcaaga 
tgcatcgac tgcagcgaa cttttatgc gacccttgc 
gttagagcc caccaacgc gtacgtgta accaaagac 
caccgaatt aacaaattt tcgaataat cttgtctca 
tcacccacg actatcgac tcagcggtc tgctcgccc 
gagactagg aacagtcct tgcgccgca ataaacaca 
atctgtgat attcatcgg gagcctaat aggctcttt 
tgtgcaaca tgttatact ccagcctgc agcgactgt 
gtcctaagc gaccacgtt tcgcacgag ttatcctat 
gtccaagaa tgcgataat acgattcta atgcatacc 
aaattaaat aatgaaacc agaagtgca atgacggca 
gttgcagaa gcaatggaa aatgtcaag tttatgtcc 
accaaaatt cacctcaag ctgcaaaag acgacggtg 
gatgtgcag aacgtcttt aaaaaatac gtcacagct 
ttagaacgt cgcgcccaa gagctcgtg agcaaaatc 
gagcaaatc cagcggttc aaagcctac cgcctcctc 
tcgcaaatg gagcgcctc cgcctggcc caagcccgc 
ctcacctac gtctccaac atcctcaac gcgtccttc 
gccagcgcc accaacagc gaattcatc atcgccaac 
gaaaaggcc tacaacgag ctcaaatcc atccggtcc 
gttcaggcc gaactcgtc ccatgcgaa gacgactac 
atccgcttc acggccgtc gacaacggc ctcttctcc 
gccatcaac tccctgggc aacatcaac accagctcg 
gccatgagc tggggcccc gagccctcc acacccctg 
gcaaccgag attttgaaa atgtccgac atcaaccaa 
aactgccgg ccgctgtac ggcgtcgtc gaccaagtg 
tcggtcaag cacgtcggc tcagcctcc cccatgatt 
ttcgcaaag gaaggggtg gaggacggg cagttgtgc 
cgcccctgg ggggtttgt tgcaacagc ctggggcac 
attatagtc acagatcgg agcaacaac cggattcaa 
gttttcgac tcgaatggc aaatttttg tacaagttt 
ggcaaacaa gggagtggt ttgggccag tttgaacgc 
ccggctggg atcaccgtg agccccgtt aaccacatc 
gtagtggcc gataaagac aaccaccgc atccagatc 
ttcaaaatg gacggtacc tttatcctg acttttggg 
gaaaaaggg acgcaaaat gggcaattc aactaccca 
tgggacgtt gcgtgcaac tcccaaggc gatatcgtg 
gtctccgac acccgcaac caccgcata caactgttt 
acgggggct ggggccttt attaacaag tacggcttc 
gaaggcaac tcctccatg tggaagttc ttcgattgt 
ccgcgcggg gtttgcttc actccagcc ggcaacgtc 
atggtgacc gacttcaac aaccaccgc atcgttatc 
attgacaag gacttcgtc cgggcgcag tttctgggc 
gaggagggg tcgaaggac aagcagttt ttgcgcccc 
cagggaatt atttgcgac gatcagggg aatatcgtt 
gttgccgat tcgaaaaat caccggatt caggtgttt 
gacagtttc gggaacttc ttgttccag ctgggaagg 
ccggggaag ggccccggg gagtttgac aggcccagt 
ggcctttgc ctcagcccg acagggcgc ataatcgtc 
gtggatttt gccaacgca agggttcag gttttttga
    mRNA sequence
    • >TC008876 RA
      aaaatgctc aagaggtgt gtcaaaatc gttcttttc 
ccgtatttg taaaccatt agcagtgta tttatgcga 
actgcgcat ggtggtgaa gggagggat atgcaaccc 
ctagttggg caagggaag ggcagaaag tgcacgaaa 
ttcctgata tccaaggaa ggtcgcagt acccacacc 
gcacagaag tgagataag tggtgttaa aaatattga 
agtgtgtca acaacaaac ggccagttt atggaatta 
tccgaagtc cattaggaa gtcctcacc agtcccagg 
atgtcttgc aacagtaac ccaacatcc acgtgctcg 
tctgcatcg aactgcaac gacatggac agtttggtc 
tgcaacatc atatcggtg gctttgcaa gacatatgt 
gggaactgc gatgaagga gccaaagca acatcaaga 
tgcatcgac tgcagcgaa cttttatgc gacccttgc 
gttagagcc caccaacgc gtacgtgta accaaagac 
caccgaatt aacaaattt tcgaataat cttgtctca 
tcacccacg actatcgac tcagcggtc tgctcgccc 
gagactagg aacagtcct tgcgccgca ataaacaca 
atctgtgat attcatcgg gagcctaat aggctcttt 
tgtgcaaca tgttatact ccagcctgc agcgactgt 
gtcctaagc gaccacgtt tcgcacgag ttatcctat 
gtccaagaa tgcgataat acgattcta atgcatacc 
aaattaaat aatgaaacc agaagtgca atgacggca 
gttgcagaa gcaatggaa aatgtcaag tttatgtcc 
accaaaatt cacctcaag ctgcaaaag acgacggtg 
gatgtgcag aacgtcttt aaaaaatac gtcacagct 
ttagaacgt cgcgcccaa gagctcgtg agcaaaatc 
gagcaaatc cagcggttc aaagcctac cgcctcctc 
tcgcaaatg gagcgcctc cgcctggcc caagcccgc 
ctcacctac gtctccaac atcctcaac gcgtccttc 
gccagcgcc accaacagc gaattcatc atcgccaac 
gaaaaggcc tacaacgag ctcaaatcc atccggtcc 
gttcaggcc gaactcgtc ccatgcgaa gacgactac 
atccgcttc acggccgtc gacaacggc ctcttctcc 
gccatcaac tccctgggc aacatcaac accagctcg 
gccatgagc tggggcccc gagccctcc acacccctg 
gcaaccgag attttgaaa atgtccgac atcaaccaa 
aactgccgg ccgctgtac ggcgtcgtc gaccaagtg 
tcggtcaag cacgtcggc tcagcctcc cccatgatt 
ttcgcaaag gaaggggtg gaggacggg cagttgtgc 
cgcccctgg ggggtttgt tgcaacagc ctggggcac 
attatagtc acagatcgg agcaacaac cggattcaa 
gttttcgac tcgaatggc aaatttttg tacaagttt 
ggcaaacaa gggagtggt ttgggccag tttgaacgc 
ccggctggg atcaccgtg agccccgtt aaccacatc 
gtagtggcc gataaagac aaccaccgc atccagatc 
ttcaaaatg gacggtacc tttatcctg acttttggg 
gaaaaaggg acgcaaaat gggcaattc aactaccca 
tgggacgtt gcgtgcaac tcccaaggc gatatcgtg 
gtctccgac acccgcaac caccgcata caactgttt 
acgggggct ggggccttt attaacaag tacggcttc 
gaaggcaac tcctccatg tggaagttc ttcgattgt 
ccgcgcggg gtttgcttc actccagcc ggcaacgtc 
atggtgacc gacttcaac aaccaccgc atcgttatc 
attgacaag gacttcgtc cgggcgcag tttctgggc 
gaggagggg tcgaaggac aagcagttt ttgcgcccc 
cagggaatt atttgcgac gatcagggg aatatcgtt 
gttgccgat tcgaaaaat caccggatt caggtgttt 
gacagtttc gggaacttc ttgttccag ctgggaagg 
ccggggaag ggccccggg gagtttgac aggcccagt 
ggcctttgc ctcagcccg acagggcgc ataatcgtc 
gtggatttt gccaacgca agggttcag gttttttga 
gacgcgctc atagattag ggaattgac tcagggttt 
gttgccaca aagagaaac tcctcaggt aataactga 
cctcgtgta gttaaattt aacgaattt attttattt 
ggttgatta ggatcattg taaatatgt tattagcaa 
ttgacaatt caggacctg taagttacc aattaagac 
tgaaacaag actgattgt gaataggat cctattttt 
gctaggggc gcctttgat aattagaga gccggtgtt 
gcgattagc gtttaactg atatttact cgtgtagcc 
ttgtagtag gaaaggaat attttgcta agcaatgtt 
cgaacgtta cctggtgtt gtccgagcg ggcaacctt 
taattagtc gccatttct actgtgtta agtaaaagt 
gtggcataa catgcttat tttaccatg tttaaattg 
attttgttg tattatgaa tgttttaat tattttaaa 
ctatctgtg gttctccgt cagcaacta taaagataa 
aatatgctg gtggagcgt ttataatca tcagccgat 
gatgcaaat aacgaataa ttttagtat tattaggtt 
aaaaacttg aaaagtatt aacactgaa cgaatattt 
ttcactctg actgactac ttctaaaat ttgatatta 
acttagtta ttaaggttt cgagtccat cacatgatg 
accgaagtt aagtacttc gtgaacggt catgtgagc 
atgcttatt tttatttag gtgttacta atgatttcg 
ttcttctgc agcgttagt ttttgtacg ttttgtttc 
cgccagtga tgtgacact ctttgcgca aaccaattt 
atttttctt gacgccaga gacgtatca catcatgcg 
gcttttgtt taggtactt tcgattgtg tcttatgtt 
ttgttttcc ttttaatat ttttattgc aataattgt 
gcagcgttt ccggtggaa acttgccaa aaatattca 
tagggctgt tacgacaag gccatacgg caagtcctt 
catttgatt ttgatttgt attagttta atacacctt 
tttatgtgg tgcaattta agtaatata cagttccta 
tcgac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY