Status
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Gene information
General information
TC005725 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: 8437711..8449397
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
    		TC005725
    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 *
    {{ blurIdResult }}
    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_00914

    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)

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    Fertility
    ovary size decreased - Number of animals showing the phenotype: 4
    vitellogenic egg chamber mostly not present - Number of animals showing the phenotype: 3
    mature egg not present - Number of animals showing the phenotype: 4
    previtellogenic egg chamber number decreased - Number of animals showing the phenotype: 3

    Analysis of larval stage 1 cuticle
    remarks - cuticles: bad quality of preparation,
    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: 80.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005725 RA
      MAHCMRVLH RQGGKASSA LLTEIQIRC FHVSPLAAA 
ASKVAMSKF DKDGLPYDK LIKNLEIVK KRLNRPLTL 
SEKVLYSHL DDPQNQDVQ RGTSYLRLR PDRVAMQDA 
TAQMAMLQF ISSGLKRVA VPSTIHCDH LIEAQVGGE 
KDLARAKDL NQEVYSFLS SAGNKYGVG FWKPGSGII 
HQIILENYA FPGLLMIGT DSHTPNGGG LGGLCIGVG 
GADAVDVMA NIPWELKCP NVIGVKLTG KLGGWTSPK 
DIILKVADI LTVKGGTGA IVEYFGPGV DSISCTGMA 
TICNMGAEI GATTSIFPY NSRMSDYLK ATKRGEIAG 
EADKVKSAL LNRDEDCTY DQVIEINLD TLEPHVNGP 
FTPDLANPI SKLGEAAKK NGWPVDIKV GLIGSCTNS 
SYEDMGRCA SIVKEAMNH GLKSKIPFN VTPGSEQIR 
ATIERDGIA KTLRDFGGT VLANACGPC IGQWDRKDV 
KKGEKNTIV TSYNRNFTG RNDANPATH SFVTSPELV 
TALSIAGRL DFDPTKDEL TGKDGKKFK LSSPFGDEL 
PTKGFDPGQ DTYEAPVAD GSTVKVDVS PTSQRLQLL 
EPFDKWNGK DLEDLVVLI KVKGKCTTD HISAAGPWL 
KYRGHLDNI SNNMFIGAT NAENGEMNK IKNQLTGEW 
GAVPDVARH YKANKIGWV AIGDDNYGE GSSREHAAL 
EPRHLGGRA IIVKSFARI HETNLKKQG LLPLTFSNP 
SDYDKIQPT DKISLKGLA SLTPGKPVE CEIKHADGK 
VEKILLNHS LNELQIGWF KAGSALNRM KELAASA
    CDS sequence
    • >TC005725 RA
      atggcgcac tgtatgcga gttttgcat cgccagggt 
ggcaaggcc agcagtgct ttgctgacc gaaatccaa 
ataagatgt ttccacgtt tcgccactg gcagcggcc 
gcctccaaa gtggctatg agcaaattc gacaaggac 
ggacttccc tatgataag ctaatcaaa aatctagaa 
attgtcaaa aagaggctc aaccgcccc ttgactctt 
tcggaaaaa gtgctctac tcccatctg gacgacccc 
caaaatcag gatgtccaa cgtggcacg tcttatttg 
cgcttacgc ccggaccgt gtggctatg caagacgcc 
accgcccag atggccatg ttacaattt atttccagc 
ggtttgaaa cgtgtcgct gtcccatca accattcac 
tgcgaccac ttgatcgaa gcccaagtg ggcggcgaa 
aaggacttg gcccgcgct aaagacctc aaccaggag 
gtttacagt ttcctaagc agcgccggt aacaaatac 
ggcgtcggt ttctggaaa ccgggctcc ggaatcatc 
caccaaatc atcctcgaa aattatgcc ttccctggc 
cttctcatg atcggcacc gactcgcac acccccaat 
gggggcggt ctgggcggc ctgtgcatc ggtgtcggc 
ggcgccgac gccgtggac gtcatggcc aacatcccc 
tgggagctg aaatgtccc aacgtgatc ggtgtcaaa 
ctcaccggg aaattgggc ggttggacg tcccccaag 
gacatcatc ctgaaagtg gccgatatt ttgaccgtt 
aaagggggc actggcgct atcgttgag tacttcggg 
cctggggtt gattccatt tcgtgcacc gggatggca 
accatttgc aacatgggg gctgaaatt ggggccaca 
acttccatt ttcccgtac aatagtcgc atgagcgac 
tacttgaag gccaccaag cgaggggag atcgccgga 
gaggctgat aaagttaaa agtgcgctt ttgaaccgt 
gatgaagac tgcacgtac gatcaagtg attgagatt 
aatcttgat acgcttgaa ccgcatgtt aatgggccg 
tttacgccc gatttggcg aatccgatc agtaagttg 
ggagaagcg gcgaagaaa aatgggtgg ccggttgat 
atcaaagtc gggttgatt gggtcgtgt actaatagc 
tcgtacgag gatatgggc aggtgtgcg agtatcgtc 
aaagaggcg atgaatcat gggttgaaa tcgaagatt 
ccgttcaat gtcacgccg ggatcggag cagatcagg 
gcgacgatt gaaagggat ggaattgcc aagactttg 
agggatttc ggaggcacg gtattggcc aacgcttgt 
ggcccgtgc atcgggcaa tgggaccgc aaagacgtg 
aaaaagggc gaaaagaac accattgta acctcatac 
aatcgtaac ttcaccggt cgtaacgac gccaatccg 
gcgacacat tctttcgtc acatcaccg gagctggtc 
acagctcta agtattgcg ggccgattg gacttcgac 
cccactaaa gatgaactg accggaaaa gacggcaag 
aaattcaaa ttgagttcg cccttcggg gacgaactc 
cctaccaaa ggtttcgac cccggtcaa gacacctac 
gaagccccc gtggctgac ggaagcacc gtcaaggtt 
gacgtcagc cccacgtca cagcggttg caactgttg 
gaacctttc gacaagtgg aacgggaag gatttggag 
gatttggtc gttttgatc aaagtcaag gggaaatgc 
acgactgat cacatttcg gcagctggg ccgtggctg 
aagtacaga gggcatctc gataatatt tccaacaac 
atgtttatt ggcgcgaca aatgcggaa aacggcgaa 
atgaacaag atcaagaac cagctgacg ggcgagtgg 
ggcgcagtc cccgacgtt gcgcgccac tacaaggcc 
aacaaaata gggtgggtg gccatcggc gacgataat 
tacggggag ggaagttcg cgggagcat gccgccttg 
gagccccga catctcggc ggtcgggcc attattgtt 
aaatctttc gcgcgtatc cacgaaacc aatctcaaa 
aaacagggg ctcttgcct ttgacgttc tcaaatccc 
agcgattac gataagatt caacctacc gataaaatt 
agtcttaaa ggtctcgcg agtttaact ccagggaag 
cccgttgag tgtgagatt aaacatgcc gatggaaag 
gtcgagaaa attttactt aatcattcg cttaatgag 
ctacaaatt gggtggttt aaggccgga agcgcgctc 
aacaggatg aaggagttg gcggcgtcg gcgtaa
    mRNA sequence
    • >TC005725 RA
      aagcaacaa aaaaaatta tttggaatt tttttttaa 
ataaagcaa aaaacgtaa ctactgcat tttgcgtta 
atatgaaag ttcgaaaag ccacaaact tgcagagga 
atatatttt gggccaaaa gactgattt ttgacacga 
ctgtcattt agtgttatg ccaaaagtg gatgtcatt 
aaaaaaatt catcgtaaa ttttcagaa gtacttcct 
gttgaaacg tgaacctgg ccctcggta tcacacacg 
agcaaaagt cgcgatagg gggactatt tgaaaacaa 
gttattaat ggaataaaa ttagtgaat gcgtgcgca 
cggagccgg ccagctgag aacagatca aatttaggg 
tacatacgt aagagtgta cttcacaat taccagcca 
acaccattt ctaactgct ttggggccc ttttgcaac 
catggcgca ctgtatgcg agttttgca tcgccaggg 
tggcaaggc cagcagtgc tttgctgac cgaaatcca 
aataagatg tttccacgt ttcgccact ggcagcggc 
cgcctccaa agtggctat gagcaaatt cgacaagga 
cggacttcc ctatgataa gctaatcaa aaatctaga 
aattgtcaa aaagaggct caaccgccc cttgactct 
ttcggaaaa agtgctcta ctcccatct ggacgaccc 
ccaaaatca ggatgtcca acgtggcac gtcttattt 
gcgcttacg cccggaccg tgtggctat gcaagacgc 
caccgccca gatggccat gttacaatt tatttccag 
cggtttgaa acgtgtcgc tgtcccatc aaccattca 
ctgcgacca cttgatcga agcccaagt gggcggcga 
aaaggactt ggcccgcgc taaagacct caaccagga 
ggtttacag tttcctaag cagcgccgg taacaaata 
cggcgtcgg tttctggaa accgggctc cggaatcat 
ccaccaaat catcctcga aaattatgc cttccctgg 
ccttctcat gatcggcac cgactcgca cacccccaa 
tgggggcgg tctgggcgg cctgtgcat cggtgtcgg 
cggcgccga cgccgtgga cgtcatggc caacatccc 
ctgggagct gaaatgtcc caacgtgat cggtgtcaa 
actcaccgg gaaattggg cggttggac gtcccccaa 
ggacatcat cctgaaagt ggccgatat tttgaccgt 
taaaggggg cactggcgc tatcgttga gtacttcgg 
gcctggggt tgattccat ttcgtgcac cgggatggc 
aaccatttg caacatggg ggctgaaat tggggccac 
aacttccat tttcccgta caatagtcg catgagcga 
ctacttgaa ggccaccaa gcgagggga gatcgccgg 
agaggctga taaagttaa aagtgcgct tttgaaccg 
tgatgaaga ctgcacgta cgatcaagt gattgagat 
taatcttga tacgcttga accgcatgt taatgggcc 
gtttacgcc cgatttggc gaatccgat cagtaagtt 
gggagaagc ggcgaagaa aaatgggtg gccggttga 
tatcaaagt cgggttgat tgggtcgtg tactaatag 
ctcgtacga ggatatggg caggtgtgc gagtatcgt 
caaagaggc gatgaatca tgggttgaa atcgaagat 
tccgttcaa tgtcacgcc gggatcgga gcagatcag 
ggcgacgat tgaaaggga tggaattgc caagacttt 
gagggattt cggaggcac ggtattggc caacgcttg 
tggcccgtg catcgggca atgggaccg caaagacgt 
gaaaaaggg cgaaaagaa caccattgt aacctcata 
caatcgtaa cttcaccgg tcgtaacga cgccaatcc 
ggcgacaca ttctttcgt cacatcacc ggagctggt 
cacagctct aagtattgc gggccgatt ggacttcga 
ccccactaa agatgaact gaccggaaa agacggcaa 
gaaattcaa attgagttc gcccttcgg ggacgaact 
ccctaccaa aggtttcga ccccggtca agacaccta 
cgaagcccc cgtggctga cggaagcac cgtcaaggt 
tgacgtcag ccccacgtc acagcggtt gcaactgtt 
ggaaccttt cgacaagtg gaacgggaa ggatttgga 
ggatttggt cgttttgat caaagtcaa ggggaaatg 
cacgactga tcacatttc ggcagctgg gccgtggct 
gaagtacag agggcatct cgataatat ttccaacaa 
catgtttat tggcgcgac aaatgcgga aaacggcga 
aatgaacaa gatcaagaa ccagctgac gggcgagtg 
gggcgcagt ccccgacgt tgcgcgcca ctacaaggc 
caacaaaat agggtgggt ggccatcgg cgacgataa 
ttacgggga gggaagttc gcgggagca tgccgcctt 
ggagccccg acatctcgg cggtcgggc cattattgt 
taaatcttt cgcgcgtat ccacgaaac caatctcaa 
aaaacaggg gctcttgcc tttgacgtt ctcaaatcc 
cagcgatta cgataagat tcaacctac cgataaaat 
tagtcttaa aggtctcgc gagtttaac tccagggaa 
gcccgttga gtgtgagat taaacatgc cgatggaaa 
ggtcgagaa aattttact taatcattc gcttaatga 
gctacaaat tgggtggtt taaggccgg aagcgcgct 
caacaggat gaaggagtt ggcggcgtc ggcgtaaat 
tgattcatg attttcttg tggtttaga aagcacttg 
aggtacttt tgtattatc cgattgtag agtcattga 
tcaattgtg ctgtacata gtttttatt cctttttca 
aattttttt gtgcaagta tatttaata aaacatttg 
acaataa

    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