Status
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Gene information
General information
TC008121 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: 5287785..5290159
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
    		TC008121
    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_01311

    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: 100.0% (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: 4 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    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: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection

    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 5 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008121 RA
      MTNEQGVTV KQEVTDEED ESGMDVDDD VPTLGPAAL 
GLQRVGAPA APKPPPTQP TQVLNARGM PARIRKKNK 
LFYDDDIVN TPHHRVPSA KKMKQTPVK KPKVNTPTK 
SFKETPKRN TPRDVKSPR NISPPPLQS PDRKIGQKI 
GLRLRNVLK LPKAHKWVC YEWFYSDID RCLFSGEND 
FSICLKESF PELKTRELT RVQWTKIRR MMGKPRRCS 
QAFFHEERL ELEKKRKKI RALQQRKAT ELSSFKDLP 
PEIPMQLVI GTKVTARLR KPQDGLFTG SIDAVDTSN 
NTYRITFER QGLGTHSVP DYEVLSNEP PETLSLSSF 
QNKFRPWNG ITTYAAKIS PYTNLKFKK DPLLSGSMI 
NKPIFPQEE GRIGGYPTK LLEKMVLIT KILSVKRTK 
ISELKGMNA KAEKFNSFH SEIPEEFQR NYACILIDL 
EKLNHDLQL YLDDVQALC QEIAPEPSV AAMLAPSHL 
REKCREEAA EIVQRQNSI ISADKDPVK NKSILELIT 
DLTALMLQV KSLADSDQN AYELQVLQG TMEQIKRKL 
TPSNQLVFQ NSVEIHMKH IQVGLGQNL DKKLAINGI 
SKL
    CDS sequence
    • >TC008121 RA
      atgacgaac gagcagggg gtcactgtc aagcaggag 
gtgacggac gaggaggac gagtccggg atggacgtc 
gacgatgat gtccccacg ttggggccc gcggctctg 
ggcctgcag agagtgggt gctccagct gcacctaaa 
ccgccaccc actcaacca acgcaagtc ctaaacgcc 
cgtggtatg cctgcaagg atcaggaag aaaaataaa 
ctgttttac gacgacgat atcgtcaac acgccacat 
cacagggta ccttctgcg aaaaaaatg aagcaaacg 
cctgtgaaa aaacccaaa gttaacact cccacgaaa 
agtttcaaa gaaacgccc aagagaaac acaccgagg 
gacgtcaag tcgcctcgg aatatttca ccaccgccc 
cttcaatcg cccgatcgg aaaatcggg cagaaaatc 
ggactcaga ttgagaaat gtgctcaag ttgcccaag 
gcacacaaa tgggtctgc tacgagtgg ttttacagc 
gatatcgac cggtgtttg ttttcgggg gaaaatgat 
tttagtatc tgtctaaag gagtcgttt cctgagtta 
aaaacacga gagctgacg agagtacaa tggaccaaa 
attcgaaga atgatgggg aaaccccga cgttgctct 
caagctttc tttcacgag gagagatta gaattggag 
aaaaaacgg aaaaaaatc agagcgtta caacagagg 
aaagccacc gaactttcg agttttaaa gacttgcca 
cctgaaatc cccatgcaa ttggttatc ggtacaaaa 
gtaacagcc aggcttaga aagccacaa gacggatta 
ttcaccgga agcattgac gctgtggac acctcaaac 
aacacctac agaataaca ttcgagcgc cagggatta 
ggcacacat tctgtgcct gattatgaa gttttatca 
aacgaacca cccgaaacc ctctcgttg tccagcttc 
cagaacaag ttcagaccc tggaacggg atcacaaca 
tacgcggcg aaaatctcc ccttacaca aacctaaaa 
ttcaagaaa gatccctta ctgtcgggt tcgatgatc 
aataagccc attttcccg caggaggag ggccggata 
gggggatac ccgaccaaa cttttggaa aaaatggtc 
ttaatcacg aaaatcctc agcgtcaag aggacgaaa 
atcagcgaa ctgaagggc atgaacgcc aaggcggag 
aaatttaat tcgtttcat tcggagatt cctgaagag 
tttcagcgg aattacgcc tgcattttg atcgatctt 
gagaagtta aatcacgat ttgcagctg tatctggat 
gatgttcag gcgctctgc caggaaatc gcccctgag 
ccgagcgtg gcggcgatg ctggcgcca agccatttg 
agggaaaag tgccgagaa gaggccgct gaaattgta 
caaagacag aattcgatc atttcggcc gacaaggat 
ccagttaag aataaatcg attctggaa ctcatcacc 
gatctcacg gctttgatg ttgcaagta aaaagtttg 
gccgattcg gatcaaaac gcatacgaa ttgcaagtg 
ctccaaggc acgatggaa caaatcaag aggaagttg 
acgccaagt aatcaacta gtgttccag aactccgtc 
gaaattcac atgaaacac attcaagtc ggtctcggg 
caaaattta gataaaaaa ctcgccata aatggaatt 
tccaaacta tga
    mRNA sequence
    • >TC008121 RA
      aacttgacg tcaatatgg cggacgaac ttgaaagta 
agtaaaacg cgtctagtt tgataaatt ccggagaaa 
ttcgagtgt tttggttgt gaaaattgc cccagaatt 
aatctttgg gcctttgtc gagtgaatc agattcagg 
gttcagaaa cgggcgcag aatgacgaa cgagcaggg 
ggtcactgt caagcagga ggtgacgga cgaggagga 
cgagtccgg gatggacgt cgacgatga tgtccccac 
gttggggcc cgcggctct gggcctgca gagagtggg 
tgctccagc tgcacctaa accgccacc cactcaacc 
aacgcaagt cctaaacgc ccgtggtat gcctgcaag 
gatcaggaa gaaaaataa actgtttta cgacgacga 
tatcgtcaa cacgccaca tcacagggt accttctgc 
gaaaaaaat gaagcaaac gcctgtgaa aaaacccaa 
agttaacac tcccacgaa aagtttcaa agaaacgcc 
caagagaaa cacaccgag ggacgtcaa gtcgcctcg 
gaatatttc accaccgcc ccttcaatc gcccgatcg 
gaaaatcgg gcagaaaat cggactcag attgagaaa 
tgtgctcaa gttgcccaa ggcacacaa atgggtctg 
ctacgagtg gttttacag cgatatcga ccggtgttt 
gttttcggg ggaaaatga ttttagtat ctgtctaaa 
ggagtcgtt tcctgagtt aaaaacacg agagctgac 
gagagtaca atggaccaa aattcgaag aatgatggg 
gaaaccccg acgttgctc tcaagcttt ctttcacga 
ggagagatt agaattgga gaaaaaacg gaaaaaaat 
cagagcgtt acaacagag gaaagccac cgaactttc 
gagttttaa agacttgcc acctgaaat ccccatgca 
attggttat cggtacaaa agtaacagc caggcttag 
aaagccaca agacggatt attcaccgg aagcattga 
cgctgtgga cacctcaaa caacaccta cagaataac 
attcgagcg ccagggatt aggcacaca ttctgtgcc 
tgattatga agttttatc aaacgaacc acccgaaac 
cctctcgtt gtccagctt ccagaacaa gttcagacc 
ctggaacgg gatcacaac atacgcggc gaaaatctc 
cccttacac aaacctaaa attcaagaa agatccctt 
actgtcggg ttcgatgat caataagcc cattttccc 
gcaggagga gggccggat agggggata cccgaccaa 
acttttgga aaaaatggt cttaatcac gaaaatcct 
cagcgtcaa gaggacgaa aatcagcga actgaaggg 
catgaacgc caaggcgga gaaatttaa ttcgtttca 
ttcggagat tcctgaaga gtttcagcg gaattacgc 
ctgcatttt gatcgatct tgagaagtt aaatcacga 
tttgcagct gtatctgga tgatgttca ggcgctctg 
ccaggaaat cgcccctga gccgagcgt ggcggcgat 
gctggcgcc aagccattt gagggaaaa gtgccgaga 
agaggccgc tgaaattgt acaaagaca gaattcgat 
catttcggc cgacaagga tccagttaa gaataaatc 
gattctgga actcatcac cgatctcac ggctttgat 
gttgcaagt aaaaagttt ggccgattc ggatcaaaa 
cgcatacga attgcaagt gctccaagg cacgatgga 
acaaatcaa gaggaagtt gacgccaag taatcaact 
agtgttcca gaactccgt cgaaattca catgaaaca 
cattcaagt cggtctcgg gcaaaattt agataaaaa 
actcgccat aaatggaat ttccaaact atgatactt 
tttttcttt aaaaatgca ggtttttaa agcagaatg 
ctgtgcaat actataatg gccacaatt tcgatttac 
acgtctcgt tttatctta ctgtttacc gcgggtttt 
atttataat tactgtatt tttgtgggt atttcacag 
aatgtgtat attttactt gtgtaatta ataaaaatg 
tatatatga ggcaccata tgtaatttt agaactgtt 
caaattttt atcaaaatt gg

    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