Status
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Gene information
General information
TC005500 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: 12084232..12091989
Sequence information
Transcripts / Proteins (2) 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
    		TC005500
    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_03968

    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: 10.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     larva complete everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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: 20.0% (includes death as larva, prepupa, pupa, adult)

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

    adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    Pupal morphology
    oblique dorsal thoracic muscles need term distalsize shortened - Number of animals showing the phenotype: 9

    Adult morphology
    elytra orientation not closed - Number of animals showing the phenotype: 1


    elytra pigmentation/tanning irregular - Number of animals showing the phenotype: 1

    Comment: Elytra surface irregular.

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005500 RA
      MNLIPWVLL GLISWTSAQ GELPASEDK PNEAKLMSK 
ITVGNAPIE QRNYQVAPS PYNLPEQSE PYNIAYEYH 
NYDQMTKFL RATTSRYPS LTALYSIGK SVQGRDLWV 
MVVSASPYE HMIGKPDVK YVANMHGNE AVSRELMLH 
LIHHLVTNY HTDPYIRWL MDNTRIHIM PSMNPDGFE 
VAKEGACDG GQGRYNARG FDLNRNFPD YFKQNNKRT 
QPETEAVKE WVSKIQFVL SGSLHGGAL VASYPFDNT 
PNSLFQSYA SSPSLTPDD DVFKHLALT YSTNHAKMS 
RGVACRSSQ QGFRRGITN GAEWYPLTG GMQDFNYVW 
YGCMEVTLE VSCCKYPPA NELPKYWED NRMSLIKFL 
AEAHRGVHG FVMDENGNP VEKASLKIK TRDVGFQST 
KYGEFWRIL MPGVYKLEV YADGYVPRE VDVMVVEQH 
PTLVNVTLH AAKPGQSFK RPVTSPPIT MLSPEAAPS 
SNVDFSFPQ D
    • >TC005500 RB
      MNLIPWVLL GLISWTSAQ GELPASEDK PNEAKLMSK 
ITVGNAPIE QRNYQVAPS PYNLPEQSE PYNIAYEYH 
NYDQMTKFL RATTSRYPS LTALYSIGK SVQGRDLWV 
MVVSASPYE HMIGKPDVK YVANMHGNE AVSRELMLH 
LIHHLVTNY HTDPYIRWL MDNTRIHIM PSMNPDGFE 
VAKEGACDG GQGRYNARG FDLNRNFPD YFKQNNKRT 
QPETEAVKE WVSKIQFVL SGSLHGGAL VASYPFDNT 
PNSLFQSYA SSPSLTPDD DVFKHLALT YSTNHAKMS 
RGVACRSSQ QGFRRGITN GAEWYPLTG GMQDFNYVW 
YGCMEVTLE VSCCKYPPA NELPKYWED NRMSLIKFL 
AEAHRGVHG FVMDENGNP VEKASLKIK TRDVGFQST 
KYGEFWRIL MPGVYKLEV YADGYVPRE VDVMVVEQH 
PTLVNVTLH AAKRKDGNF YRPQQQQQP FYHRQPVPH 
PQQPGFISS ITSGFNNLV NFFG
    CDS sequence
    • >TC005500 RA
      atgaatctg ataccatgg gtcctgttg gggttgata 
tcgtggacg tcagcccaa ggggaactc cccgcttcc 
gaggacaag ccgaatgag gcgaaacta atgtccaag 
ataacagtg ggcaatgcg cccatcgag cagaggaat 
tatcaagtc gcgccctcg ccctacaat ttacccgaa 
caaagcgag ccctacaat atcgcctac gagtatcat 
aattacgac caaatgact aagtttctc agagcgaca 
acgtccaga tatccctcg ttgactgcg ctgtactcg 
attggaaag tcggtgcaa gggagagat ttgtgggtg 
atggtagtc tcagcctcc ccttatgaa cacatgatt 
ggaaaaccc gacgttaag tacgttgca aatatgcac 
ggaaacgaa gccgtgagc agggaactt atgctacat 
ctgattcat cacctggtg accaactac cacacggac 
ccttacatc cgctggctg atggacaac accagaatc 
cacatcatg ccctccatg aaccccgac ggcttcgag 
gtggccaaa gagggcgcc tgtgacggt ggtcaaggt 
cgttacaac gcgcgcggt tttgacttg aaccgcaat 
ttccccgat tatttcaaa caaaacaat aaacgaacg 
caaccagaa acagaggcg gtcaaagaa tgggtttcc 
aaaatccag ttcgttttg tctgggagt ttgcacggt 
ggcgcttta gtcgccagt tatcccttc gataatact 
ccgaattca ctgtttcag agctacgcg tcctcaccg 
tctcttaca ccagacgat gatgttttc aaacattta 
gcgctgact tactccacg aatcatgcg aagatgagt 
cgcggagtt gcgtgcagg tcgtcacag cagggattc 
agaagggga attacaaac ggtgccgaa tggtacccc 
ctgactgga ggcatgcaa gacttcaac tacgtctgg 
tacggctgc atggaagtg actctggaa gtgtcctgt 
tgcaaatat cccccagca aacgaacta ccaaaatac 
tgggaggac aatcgcatg tccctgatt aaattcctc 
gccgaagcc catcgtggc gtccacggc ttcgtcatg 
gacgagaac ggcaatccg gtcgaaaaa gcctctctc 
aaaataaaa acccgcgat gtgggcttc cagtcgacg 
aaatacggc gagttctgg agaatcctc atgcccgga 
gtgtacaaa ctcgaggtt tacgccgac ggttacgtg 
ccccgagag gtggacgtc atggtggtg gagcaacac 
cccactctt gtgaacgtg actctgcac gcagccaag 
cctgggcaa agttttaaa agaccggtc acttctccc 
ccgatcact atgctctcg ccagaggcg gcaccctct 
tcaaacgtt gacttttcc ttcccgcaa gactaa
    • >TC005500 RB
      atgaatctg ataccatgg gtcctgttg gggttgata 
tcgtggacg tcagcccaa ggggaactc cccgcttcc 
gaggacaag ccgaatgag gcgaaacta atgtccaag 
ataacagtg ggcaatgcg cccatcgag cagaggaat 
tatcaagtc gcgccctcg ccctacaat ttacccgaa 
caaagcgag ccctacaat atcgcctac gagtatcat 
aattacgac caaatgact aagtttctc agagcgaca 
acgtccaga tatccctcg ttgactgcg ctgtactcg 
attggaaag tcggtgcaa gggagagat ttgtgggtg 
atggtagtc tcagcctcc ccttatgaa cacatgatt 
ggaaaaccc gacgttaag tacgttgca aatatgcac 
ggaaacgaa gccgtgagc agggaactt atgctacat 
ctgattcat cacctggtg accaactac cacacggac 
ccttacatc cgctggctg atggacaac accagaatc 
cacatcatg ccctccatg aaccccgac ggcttcgag 
gtggccaaa gagggcgcc tgtgacggt ggtcaaggt 
cgttacaac gcgcgcggt tttgacttg aaccgcaat 
ttccccgat tatttcaaa caaaacaat aaacgaacg 
caaccagaa acagaggcg gtcaaagaa tgggtttcc 
aaaatccag ttcgttttg tctgggagt ttgcacggt 
ggcgcttta gtcgccagt tatcccttc gataatact 
ccgaattca ctgtttcag agctacgcg tcctcaccg 
tctcttaca ccagacgat gatgttttc aaacattta 
gcgctgact tactccacg aatcatgcg aagatgagt 
cgcggagtt gcgtgcagg tcgtcacag cagggattc 
agaagggga attacaaac ggtgccgaa tggtacccc 
ctgactgga ggcatgcaa gacttcaac tacgtctgg 
tacggctgc atggaagtg actctggaa gtgtcctgt 
tgcaaatat cccccagca aacgaacta ccaaaatac 
tgggaggac aatcgcatg tccctgatt aaattcctc 
gccgaagcc catcgtggc gtccacggc ttcgtcatg 
gacgagaac ggcaatccg gtcgaaaaa gcctctctc 
aaaataaaa acccgcgat gtgggcttc cagtcgacg 
aaatacggc gagttctgg agaatcctc atgcccgga 
gtgtacaaa ctcgaggtt tacgccgac ggttacgtg 
ccccgagag gtggacgtc atggtggtg gagcaacac 
cccactctt gtgaacgtg actctgcac gcagccaag 
aggaaggat gggaatttt tatcggccg cagcaacag 
caacaaccg ttttaccac cggcagccg gtgccgcat 
ccccagcag ccgggcttc atttcttcc ataactagc 
gggtttaac aacctggtt aatttcttc ggataa
    mRNA sequence
    • >TC005500 RA
      aggggactg tccagtgcc tgccttgca ggtgtaagg 
ctcgttcac tttggttcg gtgtttcgc gttttgtgg 
tagtgtggc ctggacgga gaaaaatca attggtgga 
tttatgaca caaggagca aataattat gaatctgat 
accatgggt cctgttggg gttgatatc gtggacgtc 
agcccaagg ggaactccc cgcttccga ggacaagcc 
gaatgaggc gaaactaat gtccaagat aacagtggg 
caatgcgcc catcgagca gaggaatta tcaagtcgc 
gccctcgcc ctacaattt acccgaaca aagcgagcc 
ctacaatat cgcctacga gtatcataa ttacgacca 
aatgactaa gtttctcag agcgacaac gtccagata 
tccctcgtt gactgcgct gtactcgat tggaaagtc 
ggtgcaagg gagagattt gtgggtgat ggtagtctc 
agcctcccc ttatgaaca catgattgg aaaacccga 
cgttaagta cgttgcaaa tatgcacgg aaacgaagc 
cgtgagcag ggaacttat gctacatct gattcatca 
cctggtgac caactacca cacggaccc ttacatccg 
ctggctgat ggacaacac cagaatcca catcatgcc 
ctccatgaa ccccgacgg cttcgaggt ggccaaaga 
gggcgcctg tgacggtgg tcaaggtcg ttacaacgc 
gcgcggttt tgacttgaa ccgcaattt ccccgatta 
tttcaaaca aaacaataa acgaacgca accagaaac 
agaggcggt caaagaatg ggtttccaa aatccagtt 
cgttttgtc tgggagttt gcacggtgg cgctttagt 
cgccagtta tcccttcga taatactcc gaattcact 
gtttcagag ctacgcgtc ctcaccgtc tcttacacc 
agacgatga tgttttcaa acatttagc gctgactta 
ctccacgaa tcatgcgaa gatgagtcg cggagttgc 
gtgcaggtc gtcacagca gggattcag aaggggaat 
tacaaacgg tgccgaatg gtaccccct gactggagg 
catgcaaga cttcaacta cgtctggta cggctgcat 
ggaagtgac tctggaagt gtcctgttg caaatatcc 
cccagcaaa cgaactacc aaaatactg ggaggacaa 
tcgcatgtc cctgattaa attcctcgc cgaagccca 
tcgtggcgt ccacggctt cgtcatgga cgagaacgg 
caatccggt cgaaaaagc ctctctcaa aataaaaac 
ccgcgatgt gggcttcca gtcgacgaa atacggcga 
gttctggag aatcctcat gcccggagt gtacaaact 
cgaggttta cgccgacgg ttacgtgcc ccgagaggt 
ggacgtcat ggtggtgga gcaacaccc cactcttgt 
gaacgtgac tctgcacgc agccaagcc tgggcaaag 
ttttaaaag accggtcac ttctccccc gatcactat 
gctctcgcc agaggcggc accctcttc aaacgttga 
cttttcctt cccgcaaga ctaacactg tatattttg 
caccagttg tggtttttt gaccattgt gattttgta 
gaggaagga tgggaattt ttatcggcc gcagcaaca 
gcaacaacc gttttacca ccggcagcc ggtgccgca 
tccccagca gccgggctt catttcttc cataactag 
cgggtttaa caacctggt taatttctt cggataagt 
taacgtatt gatacgttc tgcattatt tattttgta 
tttatgagt aggtttccg aagtctcag gttgctcaa 
ggagctttt atgttcaaa atcaaacgt tgttgactt 
ccctgttac agactgtta ataatgtta agaaataaa 
g
    • >TC005500 RB
      aggggactg tccagtgcc tgccttgca ggtgtaagg 
ctcgttcac tttggttcg gtgtttcgc gttttgtgg 
tagtgtggc ctggacgga gaaaaatca attggtgga 
tttatgaca caaggagca aataattat gaatctgat 
accatgggt cctgttggg gttgatatc gtggacgtc 
agcccaagg ggaactccc cgcttccga ggacaagcc 
gaatgaggc gaaactaat gtccaagat aacagtggg 
caatgcgcc catcgagca gaggaatta tcaagtcgc 
gccctcgcc ctacaattt acccgaaca aagcgagcc 
ctacaatat cgcctacga gtatcataa ttacgacca 
aatgactaa gtttctcag agcgacaac gtccagata 
tccctcgtt gactgcgct gtactcgat tggaaagtc 
ggtgcaagg gagagattt gtgggtgat ggtagtctc 
agcctcccc ttatgaaca catgattgg aaaacccga 
cgttaagta cgttgcaaa tatgcacgg aaacgaagc 
cgtgagcag ggaacttat gctacatct gattcatca 
cctggtgac caactacca cacggaccc ttacatccg 
ctggctgat ggacaacac cagaatcca catcatgcc 
ctccatgaa ccccgacgg cttcgaggt ggccaaaga 
gggcgcctg tgacggtgg tcaaggtcg ttacaacgc 
gcgcggttt tgacttgaa ccgcaattt ccccgatta 
tttcaaaca aaacaataa acgaacgca accagaaac 
agaggcggt caaagaatg ggtttccaa aatccagtt 
cgttttgtc tgggagttt gcacggtgg cgctttagt 
cgccagtta tcccttcga taatactcc gaattcact 
gtttcagag ctacgcgtc ctcaccgtc tcttacacc 
agacgatga tgttttcaa acatttagc gctgactta 
ctccacgaa tcatgcgaa gatgagtcg cggagttgc 
gtgcaggtc gtcacagca gggattcag aaggggaat 
tacaaacgg tgccgaatg gtaccccct gactggagg 
catgcaaga cttcaacta cgtctggta cggctgcat 
ggaagtgac tctggaagt gtcctgttg caaatatcc 
cccagcaaa cgaactacc aaaatactg ggaggacaa 
tcgcatgtc cctgattaa attcctcgc cgaagccca 
tcgtggcgt ccacggctt cgtcatgga cgagaacgg 
caatccggt cgaaaaagc ctctctcaa aataaaaac 
ccgcgatgt gggcttcca gtcgacgaa atacggcga 
gttctggag aatcctcat gcccggagt gtacaaact 
cgaggttta cgccgacgg ttacgtgcc ccgagaggt 
ggacgtcat ggtggtgga gcaacaccc cactcttgt 
gaacgtgac tctgcacgc agccaagag gaaggatgg 
gaattttta tcggccgca gcaacagca acaaccgtt 
ttaccaccg gcagccggt gccgcatcc ccagcagcc 
gggcttcat ttcttccat aactagcgg gtttaacaa 
cctggttaa tttcttcgg ataagttaa cgtattgat 
acgttctgc attatttat tttgtattt atgagtagg 
tttccgaag tctcaggtt gctcaagga gcttttatg 
ttcaaaatc aaacgttgt tgacttccc tgttacaga 
ctgttaata atgttaaga aataaag

    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