Status
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Gene information
General information
TC034861 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_007424.3: 3695989..3704693
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
    		TC034861
    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_06300

    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

    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature fluorescence degenerated - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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): 50% - 80%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC034861 RA
      MAPSFSKYV TRNNALAAA GASTALLWI LISRRRKNL 
YKLDRRKVR KTVDEEVKY FISEKKENR IKAQVDRQF 
LKQLNHLLR IIIPGWTSP EAGFLFLVA ASLVARSVC 
DLWMIDNGT KIESAIVSM DKSLFKKRL IKFIVALPL 
IAVVNNTLK FSIGELKLR LRTNMTRRL YEEYLKNFT 
YYRMSNLDN RISNADQLL TTDVDKFCE SVSELYCNT 
AKPLLDIGI YVYKLSSTL GGSTPALML GYLFVSGAV 
LTHLRKPTA RLTAGEQKL EGEFRHINS RLITHSEEI 
AFYNGNARE KATLLSSYN KLLNHLRKF LRFRVFMGV 
IDNLVAKYF ASVVGFWAV SLPFLSQGH TLAGSQHGE 
RSRLYYTYG RMLVKLAEA IGRLVLAGR ELTRLAGFT 
ARVTQLRQV LDELNQGNY ERTMVTGAE NLKANGGKF 
IFQNNVIKF DRVPLITPN GDVLIKEIT FEIKSGMNV 
LVCGPNGAG KSSLFRVLG ELWPLFGGE LTKPPRGKL 
FYIPQRPYM TLGCLRDQL TYPHSGSEA LRRGTSDKQ 
LEEHLHRVQ LGYLLEREG GLDAIADWL DVLSGGEKQ 
RIAMARLFY HKPQFAILD ECTSAVSVD VEGSMYKYC 
REVGITLLT VSHRKSLWQ HHEYVLHLD GRGAYSFRP 
IEDVTEQFG S
    CDS sequence
    • >TC034861 RA
      atggcaccc agttttagc aaatatgtg acaagaaac 
aatgctctt gcagccgct ggagcatcg acagcttta 
ttatggatt ttaatatca cgacgaaga aaaaatttg 
tacaaactg gacaggaga aaagtcagg aaaaccgtg 
gatgaagaa gtgaaatat tttatatct gagaagaaa 
gaaaatagg attaaggcg caagttgat aggcaattt 
cttaagcaa cttaatcac ctacttaga ataattatc 
ccaggatgg acttcacct gaggcggga tttctattc 
cttgtagct gcgagttta gtggctaga tctgtgtgt 
gatttatgg atgatagat aatggaacg aaaatagaa 
agtgctata gtttcaatg gacaagagt cttttcaaa 
aagcgcctt ataaaattc atcgtggcc cttccatta 
attgcagtg gtaaacaac acgctcaaa ttttcaatt 
ggcgaacta aaactaaga cttcgcacg aatatgaca 
cgtcgtctt tacgaagag tacctcaaa aacttcacc 
tattaccgc atgtccaac ctagacaat cgcatcagc 
aacgccgac caacttcta accaccgac gtcgataaa 
ttctgcgaa agcgtatca gagctttat tgcaacact 
gccaaacca ctcctcgac attggcatc tacgtctat 
aaattatcc tcaactctg ggcggaagc acgccggct 
ttgatgctt ggttattta ttcgtttct ggggctgtc 
ttaacccac ttgaggaaa cccacagct agactaaca 
gccggcgaa cagaaacta gaaggcgag ttcagacat 
atcaactca cgattgata acgcattct gaggagata 
gccttctac aatgggaac gcgcgcgaa aaggcgacc 
ttgttgtct agctataac aaactgtta aaccatttg 
aggaagttt ctccggttt agggtcttt atgggcgtt 
attgataat ctcgtagcg aaatatttc gcaagtgtt 
gtcgggttc tgggctgtg tctttacca tttttatcg 
caaggacat acacttgcc ggttcgcaa catggcgaa 
aggtctcga ttgtattac acttatggg cgcatgttg 
gtaaaactg gcagaagct ataggtcgt ttggtccta 
gcaggccgt gagttgacc agattggct ggttttaca 
gcacgcgtg acgcaacta agacaagtg ctagatgaa 
ctaaatcaa gggaattac gaacgtacg atggtgaca 
ggagccgaa aatttgaag gcaaacgga ggcaagttc 
atcttccag aacaatgtg attaagttt gaccgggtt 
cctttgatt actcctaat ggtgatgtt ttgatcaaa 
gagatcact tttgagatc aaatctgga atgaatgtc 
ttagtttgt gggcctaac ggagctggg aaatcgtcc 
ctgtttcgc gttttgggc gaattgtgg cctttattt 
ggcggtgaa ttgacgaaa ccgccacgt ggaaaacta 
ttctatatc ccgcaaagg ccctacatg actttgggt 
tgcttgcgc gatcagttg acttatcca cattcgggt 
tcggaggct ttgaggcgt ggaaccagt gataaacaa 
ttggaggaa cacctgcat agagttcag ttggggtat 
ttgttggag cgcgaagga ggcttggac gccattgct 
gattggctg gatgtgttg agtggaggg gagaaacaa 
cgtatagcg atggcgcga ttgttttat cataagcca 
cagtttgcg attttggat gaatgcact agtgctgtt 
tcggtggat gttgaagga agcatgtac aagtattgt 
agagaagtt ggtataaca ctgttgaca gtgtcacat 
aggaagtca ttatggcaa catcacgaa tatgtttta 
catttggat gggagagga gcatactct ttccggcct 
attgaagat gtaacagag caatttggg tcttaa
    mRNA sequence
    • >TC034861 RA
      catgacaga acggccatt tgtcaatta tcacaaaat 
ggaaaactt tctaatttt cctttaatg aatcctttc 
gattttaac gatcggtta atgcattcc acaggttcg 
gccaaaatc atgtgatcg gtcgaagct ccaatgaca 
gtcgctgac tggagctca gtaaaatac ttggtaaag 
tctgcttaa acgttaggt gtcagtgtt tgtggatga 
gtgagtgga aacaaatac aattgatcg gaaaactgc 
ttggtcacg atcactcaa tacttcttg tgaaaagtg 
cgaaaagat gaagtaaaa tggcaccca gttttagca 
aatatgtga caagaaaca atgctcttg cagccgctg 
gagcatcga cagctttat tatggattt taatatcac 
gacgaagaa aaaatttgt acaaactgg acaggagaa 
aagtcagga aaaccgtgg atgaagaag tgaaatatt 
ttatatctg agaagaaag aaaatagga ttaaggcgc 
aagttgata ggcaatttc ttaagcaac ttaatcacc 
tacttagaa taattatcc caggatgga cttcacctg 
aggcgggat ttctattcc ttgtagctg cgagtttag 
tggctagat ctgtgtgtg atttatgga tgatagata 
atggaacga aaatagaaa gtgctatag tttcaatgg 
acaagagtc ttttcaaaa agcgcctta taaaattca 
tcgtggccc ttccattaa ttgcagtgg taaacaaca 
cgctcaaat tttcaattg gcgaactaa aactaagac 
ttcgcacga atatgacac gtcgtcttt acgaagagt 
acctcaaaa acttcacct attaccgca tgtccaacc 
tagacaatc gcatcagca acgccgacc aacttctaa 
ccaccgacg tcgataaat tctgcgaaa gcgtatcag 
agctttatt gcaacactg ccaaaccac tcctcgaca 
ttggcatct acgtctata aattatcct caactctgg 
gcggaagca cgccggctt tgatgcttg gttatttat 
tcgtttctg gggctgtct taacccact tgaggaaac 
ccacagcta gactaacag ccggcgaac agaaactag 
aaggcgagt tcagacata tcaactcac gattgataa 
cgcattctg aggagatag ccttctaca atgggaacg 
cgcgcgaaa aggcgacct tgttgtcta gctataaca 
aactgttaa accatttga ggaagtttc tccggttta 
gggtcttta tgggcgtta ttgataatc tcgtagcga 
aatatttcg caagtgttg tcgggttct gggctgtgt 
ctttaccat ttttatcgc aaggacata cacttgccg 
gttcgcaac atggcgaaa ggtctcgat tgtattaca 
cttatgggc gcatgttgg taaaactgg cagaagcta 
taggtcgtt tggtcctag caggccgtg agttgacca 
gattggctg gttttacag cacgcgtga cgcaactaa 
gacaagtgc tagatgaac taaatcaag ggaattacg 
aacgtacga tggtgacag gagccgaaa atttgaagg 
caaacggag gcaagttca tcttccaga acaatgtga 
ttaagtttg accgggttc ctttgatta ctcctaatg 
gtgatgttt tgatcaaag agatcactt ttgagatca 
aatctggaa tgaatgtct tagtttgtg ggcctaacg 
gagctggga aatcgtccc tgtttcgcg ttttgggcg 
aattgtggc ctttatttg gcggtgaat tgacgaaac 
cgccacgtg gaaaactat tctatatcc cgcaaaggc 
cctacatga ctttgggtt gcttgcgcg atcagttga 
cttatccac attcgggtt cggaggctt tgaggcgtg 
gaaccagtg ataaacaat tggaggaac acctgcata 
gagttcagt tggggtatt tgttggagc gcgaaggag 
gcttggacg ccattgctg attggctgg atgtgttga 
gtggagggg agaaacaac gtatagcga tggcgcgat 
tgttttatc ataagccac agtttgcga ttttggatg 
aatgcacta gtgctgttt cggtggatg ttgaaggaa 
gcatgtaca agtattgta gagaagttg gtataacac 
tgttgacag tgtcacata ggaagtcat tatggcaac 
atcacgaat atgttttac atttggatg ggagaggag 
catactctt tccggccta ttgaagatg taacagagc 
aatttgggt cttaattag ctttaaaat ctaggaaaa 
tttatacaa taactaaaa cagggggac atgacaaat 
gcggtttcc cattggaaa tattgaaga aaccgcatt 
ttttgttca tggcctact tttgatgta aaagaacgt 
atatcaaga aatgaaatg atatgtcaa aacctatgt 
gatcgatag ccgcagctt ccttgataa atgaaattc 
ttgttacta taattacac aattaagtg tgtttttgt 
gttagtaaa cttctgcgc tcacatcac aaccatagc 
tgctgaaaa aattgtttt cctctacag tggcttctt 
cacagaaga aaaaatgga taacctact ttactgatc 
gaaaaagct gtgaaagtg acttttttt taagcttac 
gttacgtta aatttgaat tgtttgacg ccaatatca 
tcatcaaaa atcccatca atcaacatg aaaaaaatc 
ctttataaa aaataaaaa cagtactat att

    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