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Gene information
General information
TC013124 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_007420.3: 13486292..13487851
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
    		TC013124
    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
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    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
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05388

    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)

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

    beetle stock: bad (increased lethality), adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    Pupal morphology
    beetle stock: bad (increased lethality),
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment: The yolk in some of the eggs shows clearly more fluorescence than normal.
    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
     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 - 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: 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 early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013124 RA
      MTRTKLFIL FGILNAVNI ISAGRTPLK VKWVELTAI 
EETKKPETD SKPYPAAVA TLEVLKPYP PAPVSVAPI 
LNIANSFPY PPATIVQPQ IVEEIKTPV VTEIHYNAP 
AVDIVKPYP PAAPVEVVQ PVVHEQVAQ FPYPAAVVE 
EIQPIVTEY NYNFPPVAP VEIVQPVVS THPYPPAVA 
DEIKTPIVT DYHYNLPAV EIVKPYPPA APVEVVQPV 
VPEPYVPAI EEIKTPIVT EYHYNLPAA ETLKPYPPA 
APVEVVQPV VSTHPYPPA VVEETKTPI VTEYHYDLP 
TVEIVKPYP AAPVEVVQP VVHEQVATF PYPAAVVEE 
NKTPIVTEY HYNLPAGEI LKPYPPAAV EVVPEPVAT 
FPYAPAVNK IQPVVTEYQ IPAVEIVKP APQVVATFP 
YPAAVVEEI KTPILPPPA AETLYPYPP AVIQTAHPV 
VNELLATYP YPAAVPAEA VHIREPRKI TENSNQSQM
    CDS sequence
    • >TC013124 RA
      atgacgcgc actaaatta tttatacta ttcgggata 
ttaaatgcc gttaacata atttctgcg ggccgaact 
cctttgaaa gtaaaatgg gttgaatta actgctatc 
gaagaaaca aaaaaaccg gaaaccgat tcaaaacca 
tatcctgcg gctgtcgca acactggaa gttttaaaa 
ccatatcca ccagctccc gtgagtgtt gctccaatt 
ctaaatatc gctaattca ttcccttat cctccggct 
accattgta caaccccaa attgtcgaa gaaattaaa 
actccggtt gtaacagaa atccattac aacgcacct 
gctgtagac atagtaaag ccatatcct cctgcagcc 
cctgtagaa gttgtacaa cctgttgtt cacgaacaa 
gttgcacaa ttcccctac cctgctgct gttgttgaa 
gaaattcaa ccgattgta accgaatac aactacaat 
tttcctcct gtggctcct gtagaaatt gtacaacct 
gttgtttct acacatccc tatccacct gctgttgcc 
gatgagata aaaacacct attgtaacc gattatcac 
tacaacctt cctgctgtg gaaatagtg aaaccctac 
ccccctgca gctcctgtc gaagttgta caacctgtt 
gtaccagaa ccgtacgtt cccgctatt gaagaaatt 
aaaactccg attgtaact gaataccac tacaatctt 
cctgctgcc gaaacatta aaaccgtat cctcctgca 
gcacctgta gaagttgta caacctgtt gtttctaca 
cacccctat ccacctgct gttgtcgag gagacaaaa 
accccaatt gtaaccgaa tatcactac gaccttcct 
actgtagaa atagtgaaa ccctatcct gcagctcct 
gtagaagtt gtacaacct gttgttcac gaacaagtc 
gcaacattc ccctaccct gctgctgtt gtggaagaa 
aataaaacc ccgattgta accgaatat cactacaac 
cttcctgct ggagaaata ttaaaaccg tatcctcca 
gcagctgta gaagttgta cctgaacca gtcgctaca 
tttccctat gctcctgct gttaacaaa attcaaccg 
gttgtgacc gaatatcaa attcctgca gtagaaata 
gtaaaacct gctccccaa gttgtagca acattccct 
tatcctgca gcagttgta gaagaaata aaaactcca 
attcttcca cctcctgcc gcagaaacc ctatatcca 
tacccacca gcagttata caaacagcc caccctgtg 
gttaatgaa ctgttagct acgtatcca tacccagct 
gctgttcct gctgaagct gtgcacata agagaaccg 
cgaaaaata acagaaaat tcaaaccaa tcgcaaatg 
taa
    mRNA sequence
    • >TC013124 RA
      ataattgtt tttttggtg ataacacaa cgatgacgc 
gcactaaat tatttatac tattcggga tattaaatg 
ccgttaaca taatttctg cgggccgaa ctcctttga 
aagtaaaat gggttgaat taactgcta tcgaagaaa 
caaaaaaac cggaaaccg attcaaaac catatcctg 
cggctgtcg caacactgg aagttttaa aaccatatc 
caccagctc ccgtgagtg ttgctccaa ttctaaata 
tcgctaatt cattccctt atcctccgg ctaccattg 
tacaacccc aaattgtcg aagaaatta aaactccgg 
ttgtaacag aaatccatt acaacgcac ctgctgtag 
acatagtaa agccatatc ctcctgcag cccctgtag 
aagttgtac aacctgttg ttcacgaac aagttgcac 
aattcccct accctgctg ctgttgttg aagaaattc 
aaccgattg taaccgaat acaactaca attttcctc 
ctgtggctc ctgtagaaa ttgtacaac ctgttgttt 
ctacacatc cctatccac ctgctgttg ccgatgaga 
taaaaacac ctattgtaa ccgattatc actacaacc 
ttcctgctg tggaaatag tgaaaccct acccccctg 
cagctcctg tcgaagttg tacaacctg ttgtaccag 
aaccgtacg ttcccgcta ttgaagaaa ttaaaactc 
cgattgtaa ctgaatacc actacaatc ttcctgctg 
ccgaaacat taaaaccgt atcctcctg cagcacctg 
tagaagttg tacaacctg ttgtttcta cacacccct 
atccacctg ctgttgtcg aggagacaa aaaccccaa 
ttgtaaccg aatatcact acgaccttc ctactgtag 
aaatagtga aaccctatc ctgcagctc ctgtagaag 
ttgtacaac ctgttgttc acgaacaag tcgcaacat 
tcccctacc ctgctgctg ttgtggaag aaaataaaa 
ccccgattg taaccgaat atcactaca accttcctg 
ctggagaaa tattaaaac cgtatcctc cagcagctg 
tagaagttg tacctgaac cagtcgcta catttccct 
atgctcctg ctgttaaca aaattcaac cggttgtga 
ccgaatatc aaattcctg cagtagaaa tagtaaaac 
ctgctcccc aagttgtag caacattcc cttatcctg 
cagcagttg tagaagaaa taaaaactc caattcttc 
cacctcctg ccgcagaaa ccctatatc catacccac 
cagcagtta tacaaacag cccaccctg tggttaatg 
aactgttag ctacgtatc catacccag ctgctgttc 
ctgctgaag ctgtgcaca taagagaac cgcgaaaaa 
taacagaaa attcaaacc aatcgcaaa tgtaacgct 
tgtgtctgc tgtttattt attgtataa ttgattttt 
taataaatt gatttgtaa aag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY