Status
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Gene information
General information
TC007640 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_007419.2: 1817706..1820201
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
    		TC007640
    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
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    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 *
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    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
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01233

    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: 100.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 10 (9 dpi)
    Days post injection

    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: 90.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality late (L7) - (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007640 RA
      MSYSVNISV EAPIENQIQ EITYDGTEI YQPPLTLSE 
SLTKYAQKI DFSKTSDID FKKEPGEAI EDNKSDSDS 
KDAFQSSLW PWDSARNKL RNAFQEVCV LADVLAIAK 
DKRYMVLDP VQQEPIETK PMVQIYARK KALAGAASV 
LLTGAERLK TSQNEAARN RTVPDFHIE LLRLRQNWR 
LKKVSNTII GDLSYRTAG SKYTQTGTF EVTKAEDDD 
KTNSPPSSP IPGGATTAK TNSALRVSI PSELQGVAY 
IEVLCQKDQ EDLCSVNVN LLGSGPPAS NPDMHWQQK 
LEAAQNVLF CKELFNQLA KEAVQLQAP IPHMVVGNQ 
IMATVFPGI QLIIGLCHS TVGDKKQQN NNSSKTDHD 
HVLEHSLHQ LLREVHHKN THHPFPHPA TGPLGPSKK 
RMLAGPMAA DRYELLEMT KSETLLEQI IKQAQHFFM 
RLRTEYVLD TIAKEVKDP LISSHWNTL NSPTQSCVK 
INISTHGYD ALCRTPLVI HVGEKSLKC ICRDGKVMH 
MSYEPQELR DLIFCHINQ HQILAVQAL AKTMGWQFL 
ANSNHLGTG AVEPLGNAS SCLLASPTG DRIIAVRCE 
PQTGIQVCV AHSPRSDFF PSRLVTERK WEHLGGQFR 
DVRLEKMEG RNFLHKMEL LMASLTSSS
    CDS sequence
    • >TC007640 RA
      atgtcttac tcggtaaat atatcagtg gaagcgcct 
atagaaaac caaatacaa gaaatcacg tacgatgga 
acggaaata taccaacct ccgttgact ctatcagaa 
agtctcacc aaatacgcc caaaaaatc gactttagc 
aaaactagt gatattgac tttaaaaaa gaaccaggg 
gaggcaatt gaagacaat aaatctgac tctgacagt 
aaagacgct ttccagtca agtctatgg ccatgggac 
tcagccaga aacaaacta cgcaacgca tttcaggaa 
gtttgcgtc ttggctgac gtccttgcc atagctaag 
gacaaacgc tacatggtc ttggacccc gtccaacaa 
gaaccgatt gaaaccaaa ccaatggtg caaatatac 
gcccgtaag aaagcacta gctggggct gccagtgtc 
ctactcact ggtgccgaa cgactgaaa acgtcccaa 
aacgaagct gccagaaac agaactgtc ccagatttt 
cacatagaa ttgttaaga ttgcgccaa aattggagg 
cttaaaaaa gtctcaaat acaataatc ggggacttg 
agttatcgc acagctggc tctaaatac acacaaact 
ggcactttc gaagttacg aaagctgaa gacgatgat 
aagacaaac agtccgcct agtagtcca atacctgga 
ggtgccaca acggccaaa acaaattcc gctttgcga 
gtttcaatt ccttcagaa ttgcaaggg gtggcttat 
attgaagtt ttgtgtcag aaagatcaa gaagatctc 
tgtagtgtt aatgtaaat ttgttaggg tcaggtcca 
ccagcttca aaccctgac atgcactgg caacagaag 
ttagaagcg gcgcaaaat gttttgttc tgtaaagaa 
ttatttaac caacttgcc aaagaagca gttcagttg 
caggcgcct ataccacat atggttgta ggaaatcaa 
attatggcc acggttttt cccggcatt caattaata 
ataggattg tgtcactca actgtaggc gacaaaaaa 
caacaaaac aataactca tcaaaaacc gatcatgac 
cacgtattg gaacactca ttacaccag ttattgcga 
gaagtccac cacaaaaac acccatcac ccattcccc 
cacccagca acaggccca ttaggcccc tcaaagaaa 
cgaatgttg gccggacct atggccgca gacagatac 
gaattactc gaaatgaca aaatccgaa acacttctt 
gaacaaatc atcaaacaa gcgcaacac tttttcatg 
agattacgg acagaatac gtgcttgat acaatagct 
aaagaagtg aaagatccc cttataagc tcccactgg 
aacacttta aacagtccg acgcaatca tgcgttaaa 
atcaacatt tcaacacat ggttatgac gctctctgt 
cggacgcct ctcgtgata cacgtgggt gaaaaaagc 
ctcaagtgc atatgtaga gatgggaaa gtcatgcac 
atgagttac gagccgcaa gaattgcga gatttgatt 
ttttgccac ataaaccag caccaaatt ttggcggtt 
caagcgttg gctaagaca atgggttgg cagtttttg 
gccaattcg aaccatttg ggcacgggg gctgtggaa 
ccgctggga aacgctagt tcgtgtctt ttggcgtct 
cccacaggt gataggatt attgcagtt aggtgtgag 
ccacagacg ggtatccag gtctgtgtg gctcattcg 
cccaggagc gattttttc cccagtagg ttggtgact 
gagcgaaag tgggagcat ttaggcgga cagtttagg 
gatgttagg ttggaaaaa atggaaggc aggaatttc 
ttgcataag atggagttg ttaatggcg agtttgacg 
agtagctcg tag
    mRNA sequence
    • >TC007640 RA
      cgtttttgt ggtaacctc aaacgtcaa atagcggta 
caaaaacaa ataatgtat tgttaattg ttatcttaa 
gtgtaaaaa aatgtctta ctcggtaaa tatatcagt 
ggaagcgcc tatagaaaa ccaaataca agaaatcac 
gtacgatgg aacggaaat ataccaacc tccgttgac 
tctatcaga aagtctcac caaatacgc ccaaaaaat 
cgactttag caaaactag tgatattga ctttaaaaa 
agaaccagg ggaggcaat tgaagacaa taaatctga 
ctctgacag taaagacgc tttccagtc aagtctatg 
gccatggga ctcagccag aaacaaact acgcaacgc 
atttcagga agtttgcgt cttggctga cgtccttgc 
catagctaa ggacaaacg ctacatggt cttggaccc 
cgtccaaca agaaccgat tgaaaccaa accaatggt 
gcaaatata cgcccgtaa gaaagcact agctggggc 
tgccagtgt cctactcac tggtgccga acgactgaa 
aacgtccca aaacgaagc tgccagaaa cagaactgt 
cccagattt tcacataga attgttaag attgcgcca 
aaattggag gcttaaaaa agtctcaaa tacaataat 
cggggactt gagttatcg cacagctgg ctctaaata 
cacacaaac tggcacttt cgaagttac gaaagctga 
agacgatga taagacaaa cagtccgcc tagtagtcc 
aatacctgg aggtgccac aacggccaa aacaaattc 
cgctttgcg agtttcaat tccttcaga attgcaagg 
ggtggctta tattgaagt tttgtgtca gaaagatca 
agaagatct ctgtagtgt taatgtaaa tttgttagg 
gtcaggtcc accagcttc aaaccctga catgcactg 
gcaacagaa gttagaagc ggcgcaaaa tgttttgtt 
ctgtaaaga attatttaa ccaacttgc caaagaagc 
agttcagtt gcaggcgcc tataccaca tatggttgt 
aggaaatca aattatggc cacggtttt tcccggcat 
tcaattaat aataggatt gtgtcactc aactgtagg 
cgacaaaaa acaacaaaa caataactc atcaaaaac 
cgatcatga ccacgtatt ggaacactc attacacca 
gttattgcg agaagtcca ccacaaaaa cacccatca 
cccattccc ccacccagc aacaggccc attaggccc 
ctcaaagaa acgaatgtt ggccggacc tatggccgc 
agacagata cgaattact cgaaatgac aaaatccga 
aacacttct tgaacaaat catcaaaca agcgcaaca 
ctttttcat gagattacg gacagaata cgtgcttga 
tacaatagc taaagaagt gaaagatcc ccttataag 
ctcccactg gaacacttt aaacagtcc gacgcaatc 
atgcgttaa aatcaacat ttcaacaca tggttatga 
cgctctctg tcggacgcc tctcgtgat acacgtggg 
tgaaaaaag cctcaagtg catatgtag agatgggaa 
agtcatgca catgagtta cgagccgca agaattgcg 
agatttgat tttttgcca cataaacca gcaccaaat 
tttggcggt tcaagcgtt ggctaagac aatgggttg 
gcagttttt ggccaattc gaaccattt gggcacggg 
ggctgtgga accgctggg aaacgctag ttcgtgtct 
tttggcgtc tcccacagg tgataggat tattgcagt 
taggtgtga gccacagac gggtatcca ggtctgtgt 
ggctcattc gcccaggag cgatttttt ccccagtag 
gttggtgac tgagcgaaa gtgggagca tttaggcgg 
acagtttag ggatgttag gttggaaaa aatggaagg 
caggaattt cttgcataa gatggagtt gttaatggc 
gagtttgac gagtagctc gtaggtttg tgaataata 
attttttgt aaaagttat aggaatcag ggccatgga 
agttgtttg tttgtcagt aggtacgtc ccgaggatt 
attacgaac ttttttaat ttcaacttg ttgaaaaaa 
agcagcttt ttattattc cttaggcca gatgcgtgt 
ttaaagtat tgtgtactt tttggaaat acataaatt 
acatttaat tgtcggcga tgcgaatgt gtattaaag 
ttgtattta ttttaagga aacccagtt tttgataaa 
tatgtgact aaattctct taaaaaat

    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