Status
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Gene information
General information
TC013390 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: 10193538..10198880
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
    		TC013390
    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_10069

    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: 50.0% (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

    adult lethality immediately after eclosion - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Fertility
    ovary robustness decreased - Number of animals showing the phenotype: 4
    Comment: dissecting the ovaries is almost impossible. Very fragile
    mature egg not present - Number of animals showing the phenotype: 4
    tropharium structure irregular - Number of animals showing the phenotype: 1

    egg chamber potentially number decreased - Number of animals showing the phenotype: 2
    previtellogenic egg chamber position irregular - Number of animals showing the phenotype: 1

    previtellogenic egg chamber potentially number decreased - Number of animals showing the phenotype: 1
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    head structure irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    head segmentation/division irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    prothorax segment partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    legs structure irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    legs tibiotarsus potentially fused - Penetrance (percentage of animals/eggs on slide): less than 30%
    legs femur potentially fused - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax segmentation/division irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen cuticle structure irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013390 RA
      MISHSIFAI FLALISSAI SETNDDILV FTVASEPTD 
GFQRYLSSA HHYHIAPTV LGFGQEWKG GSDIKNRPG 
GGWKINLLK TALEPHKDD PTKIILFTD GYDVIFTDT 
LDAILRKFK ETKARVLFG AESSCWPDV QLAPKYPQV 
TEGKRFLNS GLYMGYAPD LWQVLTFDV IEDTDDDQL 
FFTKAYLDE DLRKKVGFK LDHKSEIFQ NLNGAVSEV 
ELFEVKAKE GPEEYKIQN VLYHTVPLI LHGNGPSKL 
SLNYLGNYL ANSWNSVEG CVRCKEGQF DLKNKRANE 
MSLVLLAIF VEFNTPFLE EMLSKVYSQ EYPKHRIDL 
FIHNAMKFH SKHITDFIE KHGSEYRSV KDIKPDDGT 
TEWAARDLS LAQCLSKNC DIYFSVDSV AHLDNPHTL 
RLLIEQNRT VVAPLLPRP GKAWSNFWG DLTKEGFYA 
RSNDYMDIV HNDKRGLWN VPFIANCYA INATLLKKF 
DETKLNFDR DNWDADMAF CANLRDLDV FMYVSNRVD 
FGHLVNPET FDITRVEPE MYQIFDNEQ DWEARFIHP 
EYPENFNPE KTSLQPCPD VYWFPIVSP RFCTSLINM 
MENFGKWSD GSNKDPRLE GGYEAVPTR DIHMNQVGW 
EKHWLEFLR KYVRPLQEH VFLGYFHDP PRSLMNFVV 
RYKPDEQPS LRPHHDSST YTINIALNQ RGVDYEGGG 
CRFIRYNCS VVDTKLGWL LIHPGRLTH YHEGLKVTK 
GIRYIMIAF VDP
    CDS sequence
    • >TC013390 RA
      atgattagt cacagtatt ttcgccata tttcttgcg 
ttaatttcg agtgccatt agcgaaaca aatgacgac 
attctagtc ttcacagtc gctagcgag ccaaccgac 
ggcttccag cgctacctc tcctccgcc catcactac 
cacatcgcc cccacggtc ctgggtttc ggccaggaa 
tggaaaggg ggctccgat attaaaaac cgccccgga 
ggcggctgg aaaatcaac ctccttaaa actgccctc 
gaaccacac aaagacgac cccacaaaa ataatcctt 
ttcactgat ggctacgat gtcatcttc accgacact 
ctcgatgcc attttgcgc aaatttaaa gaaaccaaa 
gcccgggtt ttattcgga gccgaaagc tcctgttgg 
cctgacgta caactggcc ccaaaatac ccccaagtg 
actgaagga aaacgattc ctaaattcg gggttgtac 
atgggctac gcccccgac ttgtggcaa gtgctcact 
tttgacgtg attgaggac acggacgac gatcaactg 
tttttcact aaagcgtac ctcgatgag gatttgaga 
aaaaaagtt gggttcaag ttggaccac aaaagtgag 
attttccaa aatctgaat ggggctgtt agtgaagtc 
gagttgttt gaggttaaa gcgaaggaa ggtcctgag 
gaatataaa attcaaaat gttttatat cacactgta 
ccgttgatt ttgcacggg aatggccct tcgaaatta 
tccctaaat tatttaggg aactacttg gcgaattcg 
tggaattcg gtggaaggg tgcgtccgg tgcaaagag 
ggccagttt gacttgaaa aacaaaagg gcaaacgaa 
atgtctctt gtccttctt gcgattttt gtagaattt 
aataccccc ttcttggag gaaatgttg agtaaggtg 
tactcacag gagtacccc aagcaccgt atcgatctc 
tttatccac aatgcgatg aaatttcat tcaaaacac 
ataaccgac tttatcgaa aaacacggt tctgagtac 
cgctcagtc aaagatatc aagccggac gatggtacc 
accgaatgg gccgcacgt gacttatct ttggcccaa 
tgtttgtcc aaaaactgc gacatttac ttttccgtt 
gattcggtc gcccatttg gacaacccg cacactctt 
cggctttta atcgagcag aaccgcacc gtggtagcc 
ccccttttg ccccgtcct ggcaaggcc tggagcaac 
ttttggggg gacttgacc aaggaaggt ttctatgcc 
cggtcaaac gactacatg gatatagtc cacaacgat 
aagagaggg ctatggaac gtcccgttc atagccaac 
tgctacgcc atcaatgcc acgctcttg aagaagttt 
gatgagacg aagttgaac ttcgatcgg gataactgg 
gacgcggac atggccttt tgtgccaat ttacgcgac 
ttggacgtc ttcatgtac gtctcgaac cgcgtcgat 
ttcgggcat ttggtcaat ccggaaacc ttcgatatc 
actcgggtc gaaccggaa atgtaccaa atcttcgac 
aatgaacag gattgggag gccaggttc atccatccc 
gaatatcct gaaaacttc aaccccgaa aagacaagt 
ctacagcct tgtccagac gtttactgg ttccccatc 
gtgtcgcca cgtttttgt accagcttg atcaacatg 
atggaaaat ttcggaaaa tggtccgat ggtagcaat 
aaggatccc cggctcgaa ggcggctat gaggccgtc 
ccgacgcgt gatatccac atgaatcaa gtcggttgg 
gaaaagcat tggctggag ttcctccgg aagtacgtg 
aggcctttg caggagcac gttttcctc gggtatttc 
catgacccg ccacgatct ttaatgaat ttcgtggtt 
cggtataaa ccggacgaa caaccctcc ttaaggcca 
catcacgac agctcgacc tacaccatc aacatagcc 
ttgaatcag agaggggtt gattacgaa ggcgggggt 
tgtaggttc attaggtac aactgcagc gttgttgat 
accaaactt ggatggttg ttgatacac ccgggaagg 
ctcactcac taccatgaa gggttgaag gtcacaaaa 
gggattaga tatatcatg attgctttc gttgaccca 
tag
    mRNA sequence
    • >TC013390 RA
      taacaattt tagcgacag caaactcca acgaacaat 
gcatcaaag actcggaaa catgtggag aaaagccag 
aaagtgcat ttttgcatc accagaagt ccacgacag 
atgcaggtg agcaaaatt tggttctat ttcattcat 
ttacgcggc cgctgtttg aattttgtt gcgttcatg 
ttggcaaaa gacgctcga cgctgccaa cgtaaattt 
cagtgccat aagaacgtc atggtggtg ggttgtgtt 
tcgtctcgt tgtaaataa aataccggc aatatttat 
atttttttt caattaaaa taagaaaac gaacgtaat 
tatgattag tcacagtat tttcgccat atttcttgc 
gttaatttc gagtgccat tagcgaaac aaatgacga 
cattctagt cttcacagt cgctagcga gccaaccga 
cggcttcca gcgctacct ctcctccgc ccatcacta 
ccacatcgc ccccacggt cctgggttt cggccagga 
atggaaagg gggctccga tattaaaaa ccgccccgg 
aggcggctg gaaaatcaa cctccttaa aactgccct 
cgaaccaca caaagacga ccccacaaa aataatcct 
tttcactga tggctacga tgtcatctt caccgacac 
tctcgatgc cattttgcg caaatttaa agaaaccaa 
agcccgggt tttattcgg agccgaaag ctcctgttg 
gcctgacgt acaactggc cccaaaata cccccaagt 
gactgaagg aaaacgatt cctaaattc ggggttgta 
catgggcta cgcccccga cttgtggca agtgctcac 
ttttgacgt gattgagga cacggacga cgatcaact 
gtttttcac taaagcgta cctcgatga ggatttgag 
aaaaaaagt tgggttcaa gttggacca caaaagtga 
gattttcca aaatctgaa tggggctgt tagtgaagt 
cgagttgtt tgaggttaa agcgaagga aggtcctga 
ggaatataa aattcaaaa tgttttata tcacactgt 
accgttgat tttgcacgg gaatggccc ttcgaaatt 
atccctaaa ttatttagg gaactactt ggcgaattc 
gtggaattc ggtggaagg gtgcgtccg gtgcaaaga 
gggccagtt tgacttgaa aaacaaaag ggcaaacga 
aatgtctct tgtccttct tgcgatttt tgtagaatt 
taatacccc cttcttgga ggaaatgtt gagtaaggt 
gtactcaca ggagtaccc caagcaccg tatcgatct 
ctttatcca caatgcgat gaaatttca ttcaaaaca 
cataaccga ctttatcga aaaacacgg ttctgagta 
ccgctcagt caaagatat caagccgga cgatggtac 
caccgaatg ggccgcacg tgacttatc tttggccca 
atgtttgtc caaaaactg cgacattta cttttccgt 
tgattcggt cgcccattt ggacaaccc gcacactct 
tcggctttt aatcgagca gaaccgcac cgtggtagc 
ccccctttt gccccgtcc tggcaaggc ctggagcaa 
cttttgggg ggacttgac caaggaagg tttctatgc 
ccggtcaaa cgactacat ggatatagt ccacaacga 
taagagagg gctatggaa cgtcccgtt catagccaa 
ctgctacgc catcaatgc cacgctctt gaagaagtt 
tgatgagac gaagttgaa cttcgatcg ggataactg 
ggacgcgga catggcctt ttgtgccaa tttacgcga 
cttggacgt cttcatgta cgtctcgaa ccgcgtcga 
tttcgggca tttggtcaa tccggaaac cttcgatat 
cactcgggt cgaaccgga aatgtacca aatcttcga 
caatgaaca ggattggga ggccaggtt catccatcc 
cgaatatcc tgaaaactt caaccccga aaagacaag 
tctacagcc ttgtccaga cgtttactg gttccccat 
cgtgtcgcc acgtttttg taccagctt gatcaacat 
gatggaaaa tttcggaaa atggtccga tggtagcaa 
taaggatcc ccggctcga aggcggcta tgaggccgt 
cccgacgcg tgatatcca catgaatca agtcggttg 
ggaaaagca ttggctgga gttcctccg gaagtacgt 
gaggccttt gcaggagca cgttttcct cgggtattt 
ccatgaccc gccacgatc tttaatgaa tttcgtggt 
tcggtataa accggacga acaaccctc cttaaggcc 
acatcacga cagctcgac ctacaccat caacatagc 
cttgaatca gagaggggt tgattacga aggcggggg 
ttgtaggtt cattaggta caactgcag cgttgttga 
taccaaact tggatggtt gttgataca cccgggaag 
gctcactca ctaccatga agggttgaa ggtcacaaa 
agggattag atatatcat gattgcttt cgttgaccc 
atagataag ttcctcgat tgtaataat aacgtacta 
attgtgtag atctgattt gtcgtcttg tacataact 
tttgtaacg aatttgttt aataaaagt attttcgca 
ac

    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