Status
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Gene information
General information
TC006481 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: 10396130..10407244
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
    		TC006481
    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_04153

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    abdomen musculature lateral pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: leg musculature seems to be normal
    abdomen musculature partially not present - 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%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (22 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (41 dpi)
    Days post injection

    Adult morphology
    motility decreased - Number of animals showing the phenotype: 7 (19 dpi)
    Days post injection

    Fertility
    egg production: number no/almost no eggs -
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006481 RA
      MTQSHYSLR WNNHQTHIL AAFDALLQA ETLVDVTLV 
CAETSVRAH KVVLSACSP FFQRIFSEN PCKHPVIVL 
KDFSGWEVQ AIVDFMYKG EISVIQEQL QSLIKAAES 
LQVRGLANQ DPFGVDKES TSIINQTPT PSTSPNDFD 
RNYFGRFPT PGVTVRTPG ERSSPFSPL SCPSNYEPS 
VKLPHMSRL SFPESLLPR PECQSPIPR RKQARPRRR 
SGELCGPQD LTKPSPPPS EDAIPENLS VKKPKEDKA 
KDEDKIRTP DPSGSPEMD LSMSTGGSK EFRASPPVS 
LPPTINMKQ EIDSHSPLP FPPMPSVSA LAMTPPHSK 
FFGLDSPLG LFPPGLDGC RNPLFDMTD PRTTPDSQL 
FVKKKMGRP KGQHSAPRG GPPRSWTNA ELTEALQHV 
WNKKMTTSQ ASRIFGIPY NSLLMYVRG KYGKSLKLE 
QLRKDCIGG PTPSMDILS MGNNNNNSC KSDRDNEAI 
QPNTRPSST EEPHPQPPV FNPFAHNFY PDFGTGFPI 
PVSMIHLLP QSEKSRDHY GAQPQGEDD CKSERVKKE 
MEEEEMFRP PALSVDDRR ELVQQNGQD
    CDS sequence
    • >TC006481 RA
      atgacccag tcccactac tctctgcga tggaacaac 
catcagacg cacatcctg gcggccttc gacgccctc 
ctccaggct gagaccctc gtggacgtc accctcgtc 
tgcgccgag acgtccgtg cgcgcccac aaagtcgtc 
ctcagcgcg tgctcgccc ttcttccag cggatattc 
tcggagaat ccctgcaag caccccgtc atcgtcctc 
aaggacttc agcggctgg gaggtccaa gccatcgtc 
gattttatg tacaaaggc gaaatcagc gtgatccaa 
gagcaactc caaagtctg atcaaggcc gccgagagc 
ctccaagtg cgggggctg gccaaccag gaccccttc 
ggggtcgac aaagagtcc acgtcgatc attaaccag 
acgccgacg ccctcgacg tcacccaac gacttcgac 
aggaattac ttcggaagg tttccgact cctggagtg 
acggttcgc accccgggg gaacgttcg tcccccttt 
tcgcccctg tcgtgtccg tcgaactac gagccgtcg 
gtgaagctc ccccacatg tcccgcctg tccttcccc 
gagtccctg ctcccccgg cccgaatgc cagtcgccc 
atcccccgg aggaagcag gcgcggccg cggcggagg 
tccggcgag ctgtgcggc ccccaggac ctcaccaag 
ccgtccccg ccgccctcc gaagacgcc atccccgag 
aatctcagt gttaaaaag ccgaaggaa gacaaggcg 
aaagacgag gacaaaatt cggaccccg gacccgtcc 
gggagcccc gaaatggac ctcagcatg tccaccgga 
ggctccaag gagttccgg gcttcgcca cctgttagt 
ctgccgccc accatcaac atgaagcaa gaaattgat 
agccactca cctctaccg ttcccaccc atgccgtcg 
gtttccgca cttgcgatg actcctccg cacagtaaa 
ttttttgga ctggactcg cccttgggg ctcttcccc 
ccggggctg gacggctgc cgcaacccc ctcttcgac 
atgaccgac ccccggacg acgcccgac tcccagctc 
ttcgtcaag aaaaaaatg ggccggccc aagggccag 
cactcggcg ccccgcggg ggcccgccg cgctcgtgg 
acgaacgcc gagctgacc gaagccctc cagcacgtg 
tggaacaag aagatgacg acgagtcag gcgtcccgc 
atcttcggc atcccgtac aactcgctg ctgatgtac 
gtgcgcggc aagtacggc aagagcctg aagctggag 
cagctgcgc aaagactgc atcgggggg cccacgccc 
tcgatggac atcctcagc atggggaac aacaacaac 
aactcgtgc aagagcgac cgggacaac gaagcgatc 
cagcccaac accagacca tccagcacg gaggagccg 
cacccccag ccgcccgtc ttcaacccc ttcgcgcat 
aacttctac cccgacttc ggcacgggc ttccccatc 
ccggtcagc atgatccat ctgttgccg cagagcgaa 
aagagcagg gaccactac ggggcccaa ccgcagggc 
gaagacgac tgcaaaagc gagcgggtg aagaaggag 
atggaggag gaggagatg ttcaggcct ccggcgctc 
tctgtcgac gacaggagg gagctggtc cagcagaac 
gggcaggac taa
    mRNA sequence
    • >TC006481 RA
      aacgtgaag acaccaaca ggttaatag tgccgtttc 
ggaggggag ctgcatttt aatgggaaa tgtggcctg 
ctacagtgt agtggcggc tcgtgacga aatttatac 
gccgagggc gcagcgaaa taagaaatt caaaattcc 
ggaggagac gaaagagaa tgacggcgg tttgacgtt 
agcttcaaa cgagaactt tcggacctg accacgagc 
tcgcccttt ccacgatga cccagtccc actactctc 
tgcgatgga acaaccatc agacgcaca tcctggcgg 
ccttcgacg ccctcctcc aggctgaga ccctcgtgg 
acgtcaccc tcgtctgcg ccgagacgt ccgtgcgcg 
cccacaaag tcgtcctca gcgcgtgct cgcccttct 
tccagcgga tattctcgg agaatccct gcaagcacc 
ccgtcatcg tcctcaagg acttcagcg gctgggagg 
tccaagcca tcgtcgatt ttatgtaca aaggcgaaa 
tcagcgtga tccaagagc aactccaaa gtctgatca 
aggccgccg agagcctcc aagtgcggg ggctggcca 
accaggacc ccttcgggg tcgacaaag agtccacgt 
cgatcatta accagacgc cgacgccct cgacgtcac 
ccaacgact tcgacagga attacttcg gaaggtttc 
cgactcctg gagtgacgg ttcgcaccc cgggggaac 
gttcgtccc ccttttcgc ccctgtcgt gtccgtcga 
actacgagc cgtcggtga agctccccc acatgtccc 
gcctgtcct tccccgagt ccctgctcc cccggcccg 
aatgccagt cgcccatcc cccggagga agcaggcgc 
ggccgcggc ggaggtccg gcgagctgt gcggccccc 
aggacctca ccaagccgt ccccgccgc cctccgaag 
acgccatcc ccgagaatc tcagtgtta aaaagccga 
aggaagaca aggcgaaag acgaggaca aaattcgga 
ccccggacc cgtccggga gccccgaaa tggacctca 
gcatgtcca ccggaggct ccaaggagt tccgggctt 
cgccacctg ttagtctgc cgcccacca tcaacatga 
agcaagaaa ttgatagcc actcacctc taccgttcc 
cacccatgc cgtcggttt ccgcacttg cgatgactc 
ctccgcaca gtaaatttt ttggactgg actcgccct 
tggggctct tccccccgg ggctggacg gctgccgca 
accccctct tcgacatga ccgaccccc ggacgacgc 
ccgactccc agctcttcg tcaagaaaa aaatgggcc 
ggcccaagg gccagcact cggcgcccc gcgggggcc 
cgccgcgct cgtggacga acgccgagc tgaccgaag 
ccctccagc acgtgtgga acaagaaga tgacgacga 
gtcaggcgt cccgcatct tcggcatcc cgtacaact 
cgctgctga tgtacgtgc gcggcaagt acggcaaga 
gcctgaagc tggagcagc tgcgcaaag actgcatcg 
gggggccca cgccctcga tggacatcc tcagcatgg 
ggaacaaca acaacaact cgtgcaaga gcgaccggg 
acaacgaag cgatccagc ccaacacca gaccatcca 
gcacggagg agccgcacc cccagccgc ccgtcttca 
accccttcg cgcataact tctaccccg acttcggca 
cgggcttcc ccatcccgg tcagcatga tccatctgt 
tgccgcaga gcgaaaaga gcagggacc actacgggg 
cccaaccgc agggcgaag acgactgca aaagcgagc 
gggtgaaga aggagatgg aggaggagg agatgttca 
ggcctccgg cgctctctg tcgacgaca ggagggagc 
tggtccagc agaacgggc aggactaaa gagggcgcg 
cgtgtcgag gcttaaggt tctttttgt ttcggttgg 
ttgttgttt aaatgttta ttcttagag taataagct 
gtgcttcct catttttct cattcgttt ccggtatta 
gaaagaatg ctcgccggg tcgtggccc cgcgacccg 
gggttttta taagactga tatatcata ttgccaacg 
ttccaacag tttaacagt ttattttac agactacca 
ctttacagt tcctcgcat attttaata tacagattt 
tattatacc agatttcta taatataca aacggtttt 
ctgtttcga cattcctct acatgcaac aatttttca 
gctgcgata ttagtaaca gtaattttt tacacgcgt 
ttgtacagt aaacagatt ataaataat attaaacaa 
gaatatttt gttctacag aactctact ttcagtatt 
tttgtaacc tgacccatg aacagacta ttatacaga 
tttttatac atttacagc agttaatcg ttgatacta 
acgttggaa ccgactgat gaaattctt tgttgacgc 
aacgttgtg attgttacc taatttccc acctgattt 
tttggcaag atgattgaa aaagcggtc tctcattca 
accggacaa gcctttaga ctaacatga aacccaaaa 
aacgtttgt acaaaaatt atgtgttga cttagtgta 
ttcaactcg tagagcaaa ttcggtgtg ttaataaac 
aaattgtga aaaattgta taaatttag gtcattata 
ggtatacgg tcaacaaac aatgtacaa atcttctct 
ctttggctg caaggaaat tcaaccgct tttcatctc 
gatcgagtc acgctaacg tgacaccag caatttttg 
tgataacta ttttcttat tgagtcggt ttacagcac 
tatcaccgc ttggtgcac tcaaatcac tcggatttt 
gttccgtta cgtccattg cagggtact agtgagttc 
aaaaacttg cagtttcaa acaaattcg atgacacat 
cactaggat aataatttc aatagaatc tctgtgtgt 
gatttcgtt tcttcgatc cctcattgt atgatatta 
aaaatggaa aataatgta aattaggat tcttgataa 
aatgtgata acaagtcgc gtctgcggc tcgacattt 
gttagatat tatatttag tagtagtta ggacgggat 
tgacaaacg tctcttttc atgtttttg ggcgacttt 
tgacagtct tgtccgcaa gtgagatat atgttacca 
ctattcttc tgtttattt attcgattc tccctctct 
tacgacaaa ggttgtgca cttatagta ttatttttc 
gcttttatt tataatttt gcgcttcag agttccttg 
ttttatcaa taaagactc catggaaga acaactcag 
ctaccaccg acttgctct tccatgccc tacacgaaa 
taatactac agtaaaata aagaaatgg tgctggtaa 
ttttaattg ttaagttgt acatataac aaacagaca 
ttcctatca aagtattat tacttaatt attttgcaa 
acaagcaat tttattacg agttccttt taattagtt 
gttttattt tgtatagtc gcacgtgtt agtcgtagg 
ttttgtttt agtcgcacg gatcttatt tatttattg 
ttttagcac gagcacaaa atagacaat atcaagtga 
aaaattaga aaatccgcg aaatgcagg gtatttgat 
ttttcccct cccccagac agtaccgat aaatactcg 
agtgcaata ttttcgaaa aattcgttc gtttttaaa 
tgtataaaa gaattttcg aaattctca aaaaggaac 
gtatccctg gcataattg tgtataaaa attaatgtt 
gcaatctgt aaa

    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