Status
Please wait ...
Gene information
General information
TC004619 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_007416.3: 6525902..6529476
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
    		TC004619
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00737

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%
    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    embryo/egg not developed/not fertilized - 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): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004619 RA
      MGGKYSSLD PMEIEVPEI DKLLARDPY LKPFEKEIR 
RRYGCFKDL LETIDENGC GLDSFTQGY KYYGLHVQP 
DNTIVAREW APGAVQLFL TGDFNGWNR DSHRYKKLE 
FGKWELVIP PKPDGSCAI PHLSEVKVV VETQSGTKE 
DRLSPYATY VVEPPKDQG TIYKQKFWN PPNSEKYEF 
RHSRPAKPK GLRIYECHV GIATSELKV GSYDNFTDN 
ILPRIVKQG YNTIQLMAI MEHAYYASF GYQVTSFYA 
ASSRYGTPE QLKRLIDRA HELGLTVLL DLVHSHASK 
NVLDGLNQF DGTDSCFFH AGARGEHSL WDSRLFNYQ 
EFEVMRFLL SNIRWYMEE YKFDGFRFD GVTSMLYHS 
RGIGQGFSG NYEEYFGLN VDTEGLVYL MLANHVAHH 
FNPDGITIA EDVSGMPGT CRPISEGCL GFDYRLAMA 
VPDKWIKLL KHYSDDDWN VGNIVHTLT NRRWMEPSV 
AYAESHDQA LVGDKTIAF WLMDKEMYT HMSTLSPSS 
PVVERGLAL HKLIRFITH ALGGEAYLN FMGNEFGHP 
EWLDFPRAG NNNSYHYAR RQWQLVDDE LLKYKFLNN 
WDAAMNHAE EKYGWLSAP PAYVSWKHE DDKVIAFER 
AGLLFVFNF HPTKSFADY KLGFEGEGE FRIALCSDD 
KEFGGHSRI DTSIHNFTK PESFCGRRN SIQVYIPSR 
TVIMLAKV
    CDS sequence
    • >TC004619 RA
      atgggtgga aaatactcg tctttggac cccatggag 
atcgaggtg cctgaaatt gataaactc ctcgctaga 
gacccgtat cttaagccg tttgagaag gaaatccgt 
cgccgatat gggtgtttt aaagacctg cttgaaaca 
attgatgag aatgggtgc ggtttggac agtttcacc 
caagggtat aagtactat gggcttcac gtccagcca 
gacaacaca attgtggcc agagagtgg gccccgggc 
gctgtgcag ttgttccta acaggagac tttaatggc 
tggaacagg gacagccac cgttacaag aaactggag 
tttggcaaa tgggaatta gtcataccg ccaaaaccc 
gatggttca tgtgccata ccccactta tccgaagtc 
aaagtggtt gtggaaaca caatctgga acaaaagaa 
gatcgctta tcgccctat gccacatat gtggtcgag 
ccgccaaaa gaccaagga acaatttac aaacaaaag 
ttctggaac ccgccaaac tcagagaag tacgaattt 
cggcactca agaccggcg aaaccgaaa ggcttgcgc 
atatatgaa tgccatgtc ggcatagcc acgtctgaa 
ctgaaagtg ggttcctac gacaatttc actgataat 
attctacca cggatcgta aaacaaggc tataacacg 
attcagctc atggcaata atggagcac gcatattat 
gccagtttc ggttatcaa gtaactagt ttttacgcc 
gcgtctagt cgttacggg acacccgaa caactgaaa 
cggttgata gaccgggca catgagctc ggtttaacc 
gttctgctc gacttggtc cattcacac gccagtaaa 
aacgtgttg gatgggttg aaccagttc gacggtact 
gactcgtgt ttcttccat gcgggggcg cgcggggag 
cactctttg tgggactca agactgttc aattaccag 
gaattcgaa gtgatgcgg tttttgttg tccaacatt 
cgttggtac atggaggag tacaagttc gatgggttt 
aggttcgat ggggtcacc tccatgttg taccattcg 
cgggggatc gggcaaggt ttcagcggg aattacgag 
gagtatttc gggttgaac gtcgatact gaaggctta 
gtctacctg atgttggcc aatcacgtg gcgcaccat 
ttcaatcct gatggtata accatagcc gaggacgtg 
tcaggcatg cctgggact tgccgccca attagcgag 
ggttgccta ggttttgac taccgccta gctatggct 
gtgcccgat aagtggatc aaactgctc aagcactac 
tctgacgac gactggaac gtgggcaat atcgtgcac 
acgctcact aaccggagg tggatggaa cccagcgtg 
gcttacgcc gagtcgcac gaccaggcc ctcgttggc 
gacaagacc attgccttt tggctgatg gacaaggag 
atgtacacc cacatgagc accctctcg ccctcgtcc 
cccgtggtt gagcgcggg ctcgctctg cacaagcta 
atccggttc ataacgcac gcattgggg ggcgaagcc 
tacctcaat ttcatgggg aacgagttc ggacacccc 
gaatggctc gacttcccg cgcgctggg aacaacaac 
tcctatcat tacgcgcgc cggcagtgg cagctagtc 
gacgacgag ctcctcaag tacaaattt ttgaacaac 
tgggacgcc gcgatgaac cacgccgag gagaagtac 
ggctggttg agcgcaccc ccggcctac gtcagctgg 
aagcacgag gacgataag gtgatagcg ttcgaacgc 
gccggcttg ttattcgtc ttcaatttc cacccaacg 
aaaagtttc gcggattat aaacttgga ttcgagggc 
gagggcgag tttcgcatc gccttgtgt tcggacgat 
aaggaattc gggggccac agtaggatc gatacgtcg 
attcataat ttcacgaaa ccggaaagt ttctgcggg 
aggagaaac tcgattcag gtgtatata ccttccagg 
actgttatc atgttggcc aaagtctaa
    mRNA sequence
    • >TC004619 RA
      agggattaa aatttactt ttgccaatt aatcacaca 
cgctgaaac taaatatcc gagtttaat tctcttcct 
acgaagaat ttgaagaat attaagcgt tttcagtac 
tgcttcacc gaaactata tttattctg gatctctgg 
gtgcgaaaa caatcgatc cagagccca cttcgtgcg 
ttttcgcta gttcacgcg tggagttgc acgtgaaaa 
cagttttaa ataccagat atgtgaact aaactatta 
caattcaga ttggtgcag caattgagt gaagaaaag 
tgcgaaaat gggtggaaa atactcgtc tttggaccc 
catggagat cgaggtgcc tgaaattga taaactcct 
cgctagaga cccgtatct taagccgtt tgagaagga 
aatccgtcg ccgatatgg gtgttttaa agacctgct 
tgaaacaat tgatgagaa tgggtgcgg tttggacag 
tttcaccca agggtataa gtactatgg gcttcacgt 
ccagccaga caacacaat tgtggccag agagtgggc 
cccgggcgc tgtgcagtt gttcctaac aggagactt 
taatggctg gaacaggga cagccaccg ttacaagaa 
actggagtt tggcaaatg ggaattagt cataccgcc 
aaaacccga tggttcatg tgccatacc ccacttatc 
cgaagtcaa agtggttgt ggaaacaca atctggaac 
aaaagaaga tcgcttatc gccctatgc cacatatgt 
ggtcgagcc gccaaaaga ccaaggaac aatttacaa 
acaaaagtt ctggaaccc gccaaactc agagaagta 
cgaatttcg gcactcaag accggcgaa accgaaagg 
cttgcgcat atatgaatg ccatgtcgg catagccac 
gtctgaact gaaagtggg ttcctacga caatttcac 
tgataatat tctaccacg gatcgtaaa acaaggcta 
taacacgat tcagctcat ggcaataat ggagcacgc 
atattatgc cagtttcgg ttatcaagt aactagttt 
ttacgccgc gtctagtcg ttacgggac acccgaaca 
actgaaacg gttgataga ccgggcaca tgagctcgg 
tttaaccgt tctgctcga cttggtcca ttcacacgc 
cagtaaaaa cgtgttgga tgggttgaa ccagttcga 
cggtactga ctcgtgttt cttccatgc gggggcgcg 
cggggagca ctctttgtg ggactcaag actgttcaa 
ttaccagga attcgaagt gatgcggtt tttgttgtc 
caacattcg ttggtacat ggaggagta caagttcga 
tgggtttag gttcgatgg ggtcacctc catgttgta 
ccattcgcg ggggatcgg gcaaggttt cagcgggaa 
ttacgagga gtatttcgg gttgaacgt cgatactga 
aggcttagt ctacctgat gttggccaa tcacgtggc 
gcaccattt caatcctga tggtataac catagccga 
ggacgtgtc aggcatgcc tgggacttg ccgcccaat 
tagcgaggg ttgcctagg ttttgacta ccgcctagc 
tatggctgt gcccgataa gtggatcaa actgctcaa 
gcactactc tgacgacga ctggaacgt gggcaatat 
cgtgcacac gctcactaa ccggaggtg gatggaacc 
cagcgtggc ttacgccga gtcgcacga ccaggccct 
cgttggcga caagaccat tgccttttg gctgatgga 
caaggagat gtacaccca catgagcac cctctcgcc 
ctcgtcccc cgtggttga gcgcgggct cgctctgca 
caagctaat ccggttcat aacgcacgc attgggggg 
cgaagccta cctcaattt catggggaa cgagttcgg 
acaccccga atggctcga cttcccgcg cgctgggaa 
caacaactc ctatcatta cgcgcgccg gcagtggca 
gctagtcga cgacgagct cctcaagta caaattttt 
gaacaactg ggacgccgc gatgaacca cgccgagga 
gaagtacgg ctggttgag cgcaccccc ggcctacgt 
cagctggaa gcacgagga cgataaggt gatagcgtt 
cgaacgcgc cggcttgtt attcgtctt caatttcca 
cccaacgaa aagtttcgc ggattataa acttggatt 
cgagggcga gggcgagtt tcgcatcgc cttgtgttc 
ggacgataa ggaattcgg gggccacag taggatcga 
tacgtcgat tcataattt cacgaaacc ggaaagttt 
ctgcgggag gagaaactc gattcaggt gtatatacc 
ttccaggac tgttatcat gttggccaa agtctaagt 
ttttttcca caaaataaa tgttatttt tttta

    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