Status
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Gene information
General information
TC005530 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_007423.3: 11732181..11735539
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
    		TC005530
    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_07546

    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: 30.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
     larva segment random irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen segment randomconstricted - Penetrance (percentage of animals/eggs on slide): 30% - 50%

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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005530 RA
      MKDSTPIKT GKKSKKNKH TNEETPETS PNGAKINAF 
QFMMNRRHR SIGGNSPGR EPDANDSET ASDKSVLKE 
RKSRFESWA EAKGAAKRK REYEEVGNC ISYKLEKRG 
KRLKKLLNI DCQSDDEVV TKRKKRKTV VIESDSENE 
APKTPTANK KWKFKIKLA VDDRSDVEN SSVNSQRNV 
ENAQGSVEN AQKSVDNAP KSVDNAPKS VENAQGSVE 
NAQGSVENA QGSVENAQK SVENAQGSV ADVVIVENA 
PVNTQSSDS GIDVIELDV DPANSVSDE NASRRVLRS 
RKPKKYDDF LQLSDSDDE KKKKTKVAP VFLKAVPKP 
KLDPEAMEA RRQFLMSGV PSSLKKEME KVRIFSTEE 
SDFDIFPSL SHVQQKSDN IFWDLPKVD LKLANVEEK 
MQFISPLVE NLITRSDGE NKIVNESVQ KITNLKKII 
KEIKLQNPN YPVYKIFNS LFEKSGQII ETVNDVTPK 
RRGRKKKKS LEKPPEITS REHTMWTEK YRATSSLDI 
IGNHKVVSS LKDWLSHWS LSEHKRRGS ESDFEITDS 
DSRDSATFG NTVILRGPP GSGKTSSIY AICTELGYN 
ILEVNASSK RTGKRLLQE LQEATQSHQ VKKKQNTSK 
CVLLVEDID IVFDQDEGF SAALSQIMS TSKRPIVLT 
MTDEPSAGI QRIINDCRV FQFAPLTPI LTVWLQILC 
LIEGYFVKI EALAELLAF NKGDIRRTL LQLQLWVKS 
GGHPDGNHG GSTGGATSV SIDIDDDSN LPDFGTECA 
SDTIQTHSN CVPIFNWLH NFELLWWNF PRILKMPDF 
SKHRLNRHI CDFPAGKTE KNKLQALAN CYDSLAFAD 
VMCQKNRFE ESLERSWRT KEKDSLTLE ENFSLPDYS 
DFSNDLAQF LLSGQVNNF EDSKVDFDV TLPVPEERR 
WRSKQIGCE LRLQKAVLP ADCLHRKDV ALDYMPALR 
SIARSEFER AANSTKRGN RFYSYLKGL GVHGSDVTY 
KSACDVFKI WD
    CDS sequence
    • >TC005530 RA
      atgaaagat tcaactcca ataaagacc ggtaaaaaa 
tcaaagaaa aacaagcac accaatgaa gaaaccccc 
gaaacttcc ccaaatggg gctaaaatc aacgcgttt 
caatttatg atgaatcga agacatcgg agcattggg 
gggaattcc cctgggcgt gaacctgac gcaaacgac 
tcggaaaca gcctcggat aaaagtgtc ttaaaggag 
aggaaaagt cggtttgag agctgggcg gaggccaag 
ggggctgcc aaacgtaaa cgagagtac gaggaagtc 
ggcaattgc atcagttac aagctggag aaacgggga 
aaacgattg aaaaagttg ctaaatatt gattgtcaa 
agtgacgat gaggtggtc actaaaagg aagaagcgg 
aaaactgtt gtaattgaa agtgacagt gagaacgag 
gcaccaaaa acaccaact gccaacaaa aagtggaaa 
tttaagatc aagttggcc gtggatgac aggagtgat 
gttgaaaat tcgtctgtc aacagtcaa cgaaatgtt 
gaaaatgcc caaggaagt gttgaaaat gcccaaaaa 
agtgttgac aatgcccca aaaagtgtt gacaatgcc 
ccaaaaagt gttgaaaat gcccaagga agtgttgaa 
aatgctcaa ggaagtgtt gaaaatgcc caaggaagt 
gttgaaaat gctcaaaag agtgttgaa aatgcccaa 
ggaagtgtt gcagacgtg gtgatagtt gaaaatgcc 
cctgtcaat acgcagtct agtgacagt ggcattgac 
gtcatcgaa ctcgacgtg gacccagcc aactctgtt 
tccgacgaa aatgcctca cgcagagtt ttacgatcc 
cgaaaaccg aaaaaatac gatgatttt cttcaactt 
tctgattcg gacgatgag aagaagaag aagacaaaa 
gtggcacca gttttctta aaagctgtt ccaaaacca 
aaattagat ccggaagca atggaagca agaagacag 
tttttgatg agtggtgtt ccgtcttct ttgaaaaaa 
gagatggaa aaggtgcga atttttagt actgaagaa 
tcggatttt gatattttc ccgtcgtta agtcacgtc 
cagcaaaaa tccgacaat attttctgg gatttaccc 
aaagttgat ttaaagctg gcaaacgtg gaggaaaaa 
atgcaattt atttctcca cttgtcgaa aatttaata 
actagaagt gatggtgaa aataaaatt gtcaacgag 
tctgtgcaa aaaataaca aatttaaaa aaaatcatc 
aaggagata aaattacaa aatccaaat tatccggtt 
tataagata tttaattca ttgtttgag aaaagtggt 
caaataatt gaaaccgtg aatgacgta acaccgaaa 
cgccgcggt cgcaaaaag aaaaaatct ttggaaaaa 
ccaccagaa attacatcg cgggaacac acgatgtgg 
accgagaaa taccgagca acttcctct ctcgacatc 
atcgggaac cacaaagtt gtgtcatct ttgaaagac 
tggctttcc cattggtcg ctcagtgaa cacaaaaga 
cggggcagc gaatcagat ttcgaaatt accgacagc 
gacagtcgc gacagtgcc acttttggc aacactgtc 
attttgcgg ggacccccc ggaagcggc aaaacctcg 
tccatttac gccatttgc accgaactc ggttacaac 
atacttgaa gttaacgct tcgagcaaa cgcaccggt 
aaacgcctc cttcaggag ttacaagaa gccacccag 
tcgcatcaa gtcaagaaa aaacaaaac acgagcaaa 
tgcgtccta ttggtcgaa gacattgac attgtcttt 
gaccaagac gagggtttc agtgctgcc ctctcgcag 
ataatgtca acaagcaag cggccaatt gttttaaca 
atgaccgac gagccatct gccggcatc caaagaatc 
ataaacgac tgtcgagtg tttcaattc gcgcctttg 
acgccaatt ttgacagtt tggttgcaa attttgtgc 
ctaattgag ggttatttt gtcaaaatc gaggcactt 
gccgagttg ttggcgttc aataaaggc gacatcagg 
cggactttg ctgcaatta caactgtgg gtcaagtcg 
ggtggccac cctgatggc aatcatggt ggtagcact 
ggtggtgcc actagtgtg tcaattgac attgacgat 
gattcaaac ttgcccgat tttggcaca gagtgcgct 
agtgacaca atccagaca cattcgaat tgtgtgcca 
atttttaat tggttacac aattttgag ttgctttgg 
tggaacttt ccccgcatt ttaaaaatg cccgatttt 
tccaaacat cggttaaat cgccacatt tgtgatttc 
ccggccggg aaaaccgaa aaaaacaaa ttgcaagcg 
ctggccaat tgttacgat tcgttggcg tttgctgac 
gtcatgtgt caaaaaaac cggtttgag gaaagtctc 
gaacggtct tggcggacc aaagaaaag gatagtttg 
actcttgag gagaatttt tctcttcca gattatagt 
gattttagc aatgattta gcgcaattt ttattaagt 
ggccaagtg aataatttt gaggattcg aaggttgat 
tttgatgtt acactgccg gttccagag gaacgaagg 
tggcgctcg aaacaaatc gggtgcgag ctgagatta 
cagaaagct gtattaccg gccgattgt ttacaccgg 
aaggacgta gctttggat tatatgccg gctttgagg 
agcatagca cggtccgaa tttgagaga gcggcaaat 
agtacgaag agggggaac cgcttttat agctacttg 
aagggttta ggggtgcat ggcagtgac gtcacgtat 
aagtcggcc tgtgatgtt tttaaaatt tgggattga
    mRNA sequence
    • >TC005530 RA
      ataatgagt tgtgcgggg ttttaccct gatattttg 
acttaaaac aacccagtt tcgtatcag taaagatca 
caaatcgcg taatatcaa ttgtggggc ttggtttgt 
gaattacac ttaatttcg tgttacgta accttagcc 
acaagaaac ctaacctta aagtctaca aaaaatgtc 
aacaaagcg ctgatttgg cgccaagtt ttttgtatt 
gtgttttag tgcagtttt tagtgtgtt atcgaagca 
aaacatgat ttaggaaca atgaaagat tcaactcca 
ataaagacc ggtaaaaaa tcaaagaaa aacaagcac 
accaatgaa gaaaccccc gaaacttcc ccaaatggg 
gctaaaatc aacgcgttt caatttatg atgaatcga 
agacatcgg agcattggg gggaattcc cctgggcgt 
gaacctgac gcaaacgac tcggaaaca gcctcggat 
aaaagtgtc ttaaaggag aggaaaagt cggtttgag 
agctgggcg gaggccaag ggggctgcc aaacgtaaa 
cgagagtac gaggaagtc ggcaattgc atcagttac 
aagctggag aaacgggga aaacgattg aaaaagttg 
ctaaatatt gattgtcaa agtgacgat gaggtggtc 
actaaaagg aagaagcgg aaaactgtt gtaattgaa 
agtgacagt gagaacgag gcaccaaaa acaccaact 
gccaacaaa aagtggaaa tttaagatc aagttggcc 
gtggatgac aggagtgat gttgaaaat tcgtctgtc 
aacagtcaa cgaaatgtt gaaaatgcc caaggaagt 
gttgaaaat gcccaaaaa agtgttgac aatgcccca 
aaaagtgtt gacaatgcc ccaaaaagt gttgaaaat 
gcccaagga agtgttgaa aatgctcaa ggaagtgtt 
gaaaatgcc caaggaagt gttgaaaat gctcaaaag 
agtgttgaa aatgcccaa ggaagtgtt gcagacgtg 
gtgatagtt gaaaatgcc cctgtcaat acgcagtct 
agtgacagt ggcattgac gtcatcgaa ctcgacgtg 
gacccagcc aactctgtt tccgacgaa aatgcctca 
cgcagagtt ttacgatcc cgaaaaccg aaaaaatac 
gatgatttt cttcaactt tctgattcg gacgatgag 
aagaagaag aagacaaaa gtggcacca gttttctta 
aaagctgtt ccaaaacca aaattagat ccggaagca 
atggaagca agaagacag tttttgatg agtggtgtt 
ccgtcttct ttgaaaaaa gagatggaa aaggtgcga 
atttttagt actgaagaa tcggatttt gatattttc 
ccgtcgtta agtcacgtc cagcaaaaa tccgacaat 
attttctgg gatttaccc aaagttgat ttaaagctg 
gcaaacgtg gaggaaaaa atgcaattt atttctcca 
cttgtcgaa aatttaata actagaagt gatggtgaa 
aataaaatt gtcaacgag tctgtgcaa aaaataaca 
aatttaaaa aaaatcatc aaggagata aaattacaa 
aatccaaat tatccggtt tataagata tttaattca 
ttgtttgag aaaagtggt caaataatt gaaaccgtg 
aatgacgta acaccgaaa cgccgcggt cgcaaaaag 
aaaaaatct ttggaaaaa ccaccagaa attacatcg 
cgggaacac acgatgtgg accgagaaa taccgagca 
acttcctct ctcgacatc atcgggaac cacaaagtt 
gtgtcatct ttgaaagac tggctttcc cattggtcg 
ctcagtgaa cacaaaaga cggggcagc gaatcagat 
ttcgaaatt accgacagc gacagtcgc gacagtgcc 
acttttggc aacactgtc attttgcgg ggacccccc 
ggaagcggc aaaacctcg tccatttac gccatttgc 
accgaactc ggttacaac atacttgaa gttaacgct 
tcgagcaaa cgcaccggt aaacgcctc cttcaggag 
ttacaagaa gccacccag tcgcatcaa gtcaagaaa 
aaacaaaac acgagcaaa tgcgtccta ttggtcgaa 
gacattgac attgtcttt gaccaagac gagggtttc 
agtgctgcc ctctcgcag ataatgtca acaagcaag 
cggccaatt gttttaaca atgaccgac gagccatct 
gccggcatc caaagaatc ataaacgac tgtcgagtg 
tttcaattc gcgcctttg acgccaatt ttgacagtt 
tggttgcaa attttgtgc ctaattgag ggttatttt 
gtcaaaatc gaggcactt gccgagttg ttggcgttc 
aataaaggc gacatcagg cggactttg ctgcaatta 
caactgtgg gtcaagtcg ggtggccac cctgatggc 
aatcatggt ggtagcact ggtggtgcc actagtgtg 
tcaattgac attgacgat gattcaaac ttgcccgat 
tttggcaca gagtgcgct agtgacaca atccagaca 
cattcgaat tgtgtgcca atttttaat tggttacac 
aattttgag ttgctttgg tggaacttt ccccgcatt 
ttaaaaatg cccgatttt tccaaacat cggttaaat 
cgccacatt tgtgatttc ccggccggg aaaaccgaa 
aaaaacaaa ttgcaagcg ctggccaat tgttacgat 
tcgttggcg tttgctgac gtcatgtgt caaaaaaac 
cggtttgag gaaagtctc gaacggtct tggcggacc 
aaagaaaag gatagtttg actcttgag gagaatttt 
tctcttcca gattatagt gattttagc aatgattta 
gcgcaattt ttattaagt ggccaagtg aataatttt 
gaggattcg aaggttgat tttgatgtt acactgccg 
gttccagag gaacgaagg tggcgctcg aaacaaatc 
gggtgcgag ctgagatta cagaaagct gtattaccg 
gccgattgt ttacaccgg aaggacgta gctttggat 
tatatgccg gctttgagg agcatagca cggtccgaa 
tttgagaga gcggcaaat agtacgaag agggggaac 
cgcttttat agctacttg aagggttta ggggtgcat 
ggcagtgac gtcacgtat aagtcggcc tgtgatgtt 
tttaaaatt tgggattga tttttgtat attgaataa 
aacgcacga gttttt

    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