Status
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Gene information
General information
TC010388 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_007418.3: 25305853..25309236
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
    		TC010388
    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
    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_06286

    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)

    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 6 (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: 0.0% (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: 10 (11 dpi)
    Days post injection

    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 10 (16 dpi)
    Days post injection


    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 10 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010388 RA
      MAKLGAYYG LCPLIDHRS LLGITKDEE NGVVIVTLG 
KNIAVKYKL SDQKQLHSW RTKEKFSSP IIYDKEQSK 
YVAVFNENF LRVWSENEE FIDKLKKFK FNQQIQTIF 
TCNERSFIV FKNGAVLLL SDAIERRKE LTLESVIDS 
DSESIYEVL NASFNNSVY VGLVVKTNH NFCLYWTKF 
VEDIQDNFY KISFKRGNA DLTGYVLHV DKFSVNFLS 
LWSDGRVYS VELKETDPE SADIGELFT VIESISCKE 
YVSLVSLDP NYIALYGCN SNEEGALLV IYNVQFKVV 
QTRQSFKLF TNGAKLCCI DGNLFFPVG QNLAVLPFH 
LDMEQLAAL VGSHKVVQT EPDPDISIV HKVQFVSWG 
KEADSDVTK VPEKIKPKV DDFVRQGLS DNFIFETLL 
AEVLDEKNL DALTQMVNY FPDIPESCL VKVLKFLIN 
LESKLFKTK TQSGASNFP SSLQPVERT ELLDVILTK 
SFNETLLLS HLRSILSLD EVLVLLQYI HFLLSEDGH 
CLPSRNVIE TEAKLIEWS CILLDANYQ KFLLSRDNK 
ISEVLSSLK NQIKEELGS FDDLRQVAA LLTEIKNKR 
PIQKKIHMG GMDYSIEDF PLY
    CDS sequence
    • >TC010388 RA
      atggcaaaa ttgggcgct tattacggc ctatgtccc 
ttaattgac cacagaagt ttactagga atcaccaaa 
gacgaagaa aacggtgtt gttatagtc actttgggc 
aaaaatatc gctgtgaaa tataaactt tcagaccaa 
aaacagcta cacagttgg cggaccaaa gaaaagttc 
agctctcct atcatctac gataaggag cagtcaaaa 
tatgtggcc gtattcaat gaaaatttt ctgcgggtt 
tggagcgaa aatgaggag tttattgat aagttaaaa 
aagtttaag tttaatcaa caaatccag accatattc 
acgtgtaat gagagaagc tttattgtg tttaaaaat 
ggggctgtt ttattgcta agtgatgcg atagagagg 
cgcaaagag ctgacactt gagagtgtg atcgattca 
gattctgaa tctatttat gaggtgtta aatgccagt 
tttaacaat tcggtgtat gttggttta gttgttaaa 
actaatcat aatttttgt ttgtattgg acaaagttt 
gtggaggac attcaagac aatttctat aaaatttct 
ttcaaaagg gggaacgct gatttgact ggttatgtg 
ttacacgtt gataaattc tccgtaaat tttctctct 
ttgtggagt gacgggagg gtttattca gtcgaatta 
aaagaaaca gaccctgaa tccgcagac attggcgaa 
ttattcaca gttattgaa tcgatatcg tgtaaagaa 
tacgtctcc ttggtttcc ctggacccc aactacatt 
gcattatat ggttgtaat tctaacgaa gaaggagct 
ttgctagtt atctacaac gtccagttt aaagtggtt 
caaacaaga cagtccttc aaattattt acaaatggg 
gcaaaactg tgttgcatt gatggcaat ttatttttc 
ccagtgggt cagaatctt gcagtgttg ccattccat 
ttagatatg gaacaattg gcagcactt gttggtagt 
cacaaagtt gtacaaact gaaccagat cctgatatt 
tccattgtc cataaagta cagtttgtt agttggggt 
aaagaagct gattctgat gtaacaaaa gtgccggaa 
aaaatcaag ccaaaagtt gacgatttt gtacgtcaa 
ggtttatca gataatttt atttttgaa acacttttg 
gcggaagtt ttggacgaa aaaaatctg gacgcgctt 
acgcaaatg gtaaattat ttccccgac ataccggag 
agttgttta gttaaggtt ttaaaattt ctaattaat 
ttagaatcc aagttgttt aagactaaa acacaaagt 
ggtgccagt aattttcct tccagtttg caaccggtt 
gaaagaact gagctactt gatgttatt ttaaccaaa 
tcatttaat gaaactttg cttttgtcg catcttcgc 
tcaattttg tcacttgat gaagtgtta gtattgctg 
caatatatt cattttttg ttgtctgaa gatggacac 
tgtttgccg tctcgtaac gttatagaa acggaagca 
aaactaatt gagtggagt tgcattttg ttggatgct 
aattaccag aagttttta ttaagtaga gataataaa 
atcagtgaa gttctttca tcactgaaa aatcaaata 
aaagaggaa ctcggttct tttgatgat ttacgacag 
gttgcagcc ttgttgact gaaataaaa aataaacgg 
cccattcaa aagaaaatt cacatggga ggaatggac 
tattcaata gaagatttt cctttgtat taa
    mRNA sequence
    • >TC010388 RA
      agcttcaaa aagttatta caaattttt aaacaattc 
aaaaatgca cagtgaaat gatttcatg gacagtcgg 
caccagctg tcatccata ctcaagcac atgtgcgtt 
gtttaaatt attaaatta acaattatg gcaaaattg 
ggcgcttat tacggccta tgtccctta attgaccac 
agaagttta ctaggaatc accaaagac gaagaaaac 
ggtgttgtt atagtcact ttgggcaaa aatatcgct 
gtgaaatat aaactttca gaccaaaaa cagctacac 
agttggcgg accaaagaa aagttcagc tctcctatc 
atctacgat aaggagcag tcaaaatat gtggccgta 
ttcaatgaa aattttctg cgggtttgg agcgaaaat 
gaggagttt attgataag ttaaaaaag tttaagttt 
aatcaacaa atccagacc atattcacg tgtaatgag 
agaagcttt attgtgttt aaaaatggg gctgtttta 
ttgctaagt gatgcgata gagaggcgc aaagagctg 
acacttgag agtgtgatc gattcagat tctgaatct 
atttatgag gtgttaaat gccagtttt aacaattcg 
gtgtatgtt ggtttagtt gttaaaact aatcataat 
ttttgtttg tattggaca aagtttgtg gaggacatt 
caagacaat ttctataaa atttctttc aaaaggggg 
aacgctgat ttgactggt tatgtgtta cacgttgat 
aaattctcc gtaaatttt ctctctttg tggagtgac 
gggagggtt tattcagtc gaattaaaa gaaacagac 
cctgaatcc gcagacatt ggcgaatta ttcacagtt 
attgaatcg atatcgtgt aaagaatac gtctccttg 
gtttccctg gaccccaac tacattgca ttatatggt 
tgtaattct aacgaagaa ggagctttg ctagttatc 
tacaacgtc cagtttaaa gtggttcaa acaagacag 
tccttcaaa ttatttaca aatggggca aaactgtgt 
tgcattgat ggcaattta tttttccca gtgggtcag 
aatcttgca gtgttgcca ttccattta gatatggaa 
caattggca gcacttgtt ggtagtcac aaagttgta 
caaactgaa ccagatcct gatatttcc attgtccat 
aaagtacag tttgttagt tggggtaaa gaagctgat 
tctgatgta acaaaagtg ccggaaaaa atcaagcca 
aaagttgac gattttgta cgtcaaggt ttatcagat 
aattttatt tttgaaaca cttttggcg gaagttttg 
gacgaaaaa aatctggac gcgcttacg caaatggta 
aattatttc cccgacata ccggagagt tgtttagtt 
aaggtttta aaatttcta attaattta gaatccaag 
ttgtttaag actaaaaca caaagtggt gccagtaat 
tttccttcc agtttgcaa ccggttgaa agaactgag 
ctacttgat gttatttta accaaatca tttaatgaa 
actttgctt ttgtcgcat cttcgctca attttgtca 
cttgatgaa gtgttagta ttgctgcaa tatattcat 
tttttgttg tctgaagat ggacactgt ttgccgtct 
cgtaacgtt atagaaacg gaagcaaaa ctaattgag 
tggagttgc attttgttg gatgctaat taccagaag 
tttttatta agtagagat aataaaatc agtgaagtt 
ctttcatca ctgaaaaat caaataaaa gaggaactc 
ggttctttt gatgattta cgacaggtt gcagccttg 
ttgactgaa ataaaaaat aaacggccc attcaaaag 
aaaattcac atgggagga atggactat tcaatagaa 
gattttcct ttgtattaa acttgttta atatacctt 
tgtttttta c

    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