Status
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Gene information
General information
TC005232 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_007417.3: 1781370..1799790
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
    		TC005232
    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
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00817

    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: 70.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 7 (11 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 80.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 7 (11 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005232 RA
      MFALIPRSL VTNVSSRSA VSLSGQKAT VQEAVKWLI 
DSKKDYHTV SGDTITPSK VMGIDHLRD PRLNKGLAF 
TLEERQALG IHGLQPARF KTQEEQLEL CRISVMRYQ 
ENLNKYLYM TELHDRNEK LFFRLLSEN IEMLMPIVY 
TPTVGLACQ RFGLIYRRP RGLFITIND RGHVYDVLK 
NWPESDVRA IVVTDGERI LGLGDLGAC GMGIPVGKL 
ALYTALAGI KPHHCLPIV LDVGTNNQT LLEDPLYVG 
LRQKRLSGP EYDSFVDEF MQAAVKRYG QNVLIQFED 
FGNHNAFRY LDKYRGVYC TFNDDIQGT AGVAVSGLL 
ASARVTGKK ISENKFLFL GAGEAAIGI ADLCVKAMQ 
VEGLSLEEA RGKIWMMDI DGLLAKGRP EGKLDGHKA 
YYAKEHKPV KDLASVVNE VKPSVLIGA SAASGAFTP 
EILKSMASF NDRPIIFAL SNPTDRAEC TAEQAYNNT 
DGRCIFSSG SPFPPVTYK GTTFYPGQG NNAYIFPGV 
ALGVILARI HHIKEELFL LAAQAVADH VNDSDIQKG 
SLYPPLSCI RECSVDIAT RILDYSYQE GIATVYPEP 
QDKKAYVMQ HLYNYNYES ALPTTWPWP NAPEIKTRP 
IEPTKLMA
    CDS sequence
    • >TC005232 RA
      atgttcgct ctcattccc cggtccctt gtaacgaac 
gtgtcatca cgatcggcg gttagttta tcgggacag 
aaagcaacc gttcaagaa gcagtcaaa tggctcata 
gattcgaaa aaagattac cacactgtg tcaggagat 
acaatcacg ccttcaaaa gtcatgggt atcgaccat 
cttcgtgat cctcgtctc aacaagggt ctggctttc 
actttggaa gaacgtcaa gctttgggt atccatggt 
ctacaacct gcccgattt aaaacacaa gaagaacaa 
ctggaatta tgccgaatt tctgtgatg cgttatcag 
gagaatctc aacaaatat ctgtatatg acggaattg 
catgatcgt aatgagaaa ttatttttc cgtttgtta 
tccgaaaat atcgaaatg ttgatgccg attgtttac 
acacctaca gttggttta gcctgtcag aggtttgga 
ttgatctat cggagacca agaggactc tttatcaca 
atcaatgac agaggacat gtctacgac gttctgaaa 
aactggcca gaatcagac gtccgagca atcgtcgta 
acagacggt gaacgtata ttgggtttg ggcgattta 
ggagcatgt ggtatgggt attcctgtt ggaaaactc 
gctctatac actgcactt gccggcatc aaaccgcat 
cattgtctt ccgatcgtc ctagatgtc ggaaccaac 
aaccaaaca ctgttggaa gaccctctc tatgtaggt 
ctacgccag aaaagactt tcaggacct gaatacgac 
tcatttgtt gatgaattc atgcaagct gcagtcaag 
cgttacggt caaaacgtc ctcatccaa ttcgaagat 
ttcggaaat cacaacgct ttccgttat ttggataaa 
taccgaggt gtctattgc accttcaat gacgatatt 
cagggtact gcaggtgtt gctgtttcg ggccttttg 
gcttctgca agagttacc ggcaagaaa atatccgaa 
aataagttt ctgtttttg ggagctggt gaagctgcc 
attggtatt gctgacctg tgtgttaaa gcaatgcaa 
gtcgaagga ttgtcactg gaagaagcg agaggaaaa 
atctggatg atggatatt gatggttta ttggctaaa 
ggacgtccg gaagggaaa ctagacgga cataaggcg 
tactatgcg aaagaacat aaaccagtc aaagatttg 
gcttcagtt gtaaatgaa gttaaacca tcggtttta 
attggtgcg tctgctgca agtggcgct tttacgcct 
gaaattttg aaaagtatg gcgtcgttt aacgataga 
ccgattatt tttgccttg agtaatcct accgacagg 
gcggagtgt acagcagaa caggcctat aataatact 
gatggtcgt tgcatcttc tcaagcggt tctccgttc 
cctcctgtc acctacaaa ggtaccact ttttaccca 
ggtcaaggc aacaacgct tacattttc cctggagtt 
gctttgggt gttatctta gccagaatt caccacatt 
aaggaagaa ttgttctta ttggctgct caagccgtt 
gctgatcat gtgaacgac tccgatatc caaaagggt 
agtttatat ccacctctc agttgcatc agggaatgt 
tctgtcgat attgctacg agaatttta gattactcc 
taccaagaa ggaattgca accgtatat ccggaacca 
caggacaaa aaagcatac gttatgcaa cacctttat 
aattacaat tacgaatcg gcattgcct actacatgg 
ccatggcct aatgcaccc gaaattaag acaaggccc 
atcgaaccg acaaagttg atggcttaa
    mRNA sequence
    • >TC005232 RA
      ttcaataag ataagaaac acaacaaag tgcgataaa 
tttcgcgca gtcgcgtgc tgtgtgtac tgcgagagg 
ccgactaca atcagctgt gagcaacta ccggggttc 
taaaaatgt tcgctctca ttccccggt cccttgtaa 
cgaacgtgt catcacgat cggcggtta gtttatcgg 
gacagaaag caaccgttc aagaagcag tcaaatggc 
tcatagatt cgaaaaaag attaccaca ctgtgtcag 
gagatacaa tcacgcctt caaaagtca tgggtatcg 
accatcttc gtgatcctc gtctcaaca agggtctgg 
ctttcactt tggaagaac gtcaagctt tgggtatcc 
atggtctac aacctgccc gatttaaaa cacaagaag 
aacaactgg aattatgcc gaatttctg tgatgcgtt 
atcaggaga atctcaaca aatatctgt atatgacgg 
aattgcatg atcgtaatg agaaattat ttttccgtt 
tgttatccg aaaatatcg aaatgttga tgccgattg 
tttacacac ctacagttg gtttagcct gtcagaggt 
ttggattga tctatcgga gaccaagag gactcttta 
tcacaatca atgacagag gacatgtct acgacgttc 
tgaaaaact ggccagaat cagacgtcc gagcaatcg 
tcgtaacag acggtgaac gtatattgg gtttgggcg 
atttaggag catgtggta tgggtattc ctgttggaa 
aactcgctc tatacactg cacttgccg gcatcaaac 
cgcatcatt gtcttccga tcgtcctag atgtcggaa 
ccaacaacc aaacactgt tggaagacc ctctctatg 
taggtctac gccagaaaa gactttcag gacctgaat 
acgactcat ttgttgatg aattcatgc aagctgcag 
tcaagcgtt acggtcaaa acgtcctca tccaattcg 
aagatttcg gaaatcaca acgctttcc gttatttgg 
ataaatacc gaggtgtct attgcacct tcaatgacg 
atattcagg gtactgcag gtgttgctg tttcgggcc 
ttttggctt ctgcaagag ttaccggca agaaaatat 
ccgaaaata agtttctgt ttttgggag ctggtgaag 
ctgccattg gtattgctg acctgtgtg ttaaagcaa 
tgcaagtcg aaggattgt cactggaag aagcgagag 
gaaaaatct ggatgatgg atattgatg gtttattgg 
ctaaaggac gtccggaag ggaaactag acggacata 
aggcgtact atgcgaaag aacataaac cagtcaaag 
atttggctt cagttgtaa atgaagtta aaccatcgg 
ttttaattg gtgcgtctg ctgcaagtg gcgctttta 
cgcctgaaa ttttgaaaa gtatggcgt cgtttaacg 
atagaccga ttatttttg ccttgagta atcctaccg 
acagggcgg agtgtacag cagaacagg cctataata 
atactgatg gtcgttgca tcttctcaa gcggttctc 
cgttccctc ctgtcacct acaaaggta ccacttttt 
acccaggtc aaggcaaca acgcttaca ttttccctg 
gagttgctt tgggtgtta tcttagcca gaattcacc 
acattaagg aagaattgt tcttattgg ctgctcaag 
ccgttgctg atcatgtga acgactccg atatccaaa 
agggtagtt tatatccac ctctcagtt gcatcaggg 
aatgttctg tcgatattg ctacgagaa ttttagatt 
actcctacc aagaaggaa ttgcaaccg tatatccgg 
aaccacagg acaaaaaag catacgtta tgcaacacc 
tttataatt acaattacg aatcggcat tgcctacta 
catggccat ggcctaatg cacccgaaa ttaagacaa 
ggcccatcg aaccgacaa agttgatgg cttaaaatt 
tgaaaaaca tgtaattta attgatagt aaggcctct 
gtaactttc tgatttgct tcagatgga tggaaatta 
aaagttaca aaaggcact tcaataggt aattctttt 
tccatctgt attttttaa attcgacgt attttaaca 
taatttatt gttgaatgt ttacaacct aagctttat 
ttaaaaata tacaatgtt gatcattac tttgttttg 
cgtgggcac tagaaaata gtgccattt tcagttaat 
tttgtactt aattttatt tagtattca ttcgatcac 
agcagcttt cgattaata agtattgtt tttgtgttt 
cttttttgt atttgctga tctacgagc aatatcgtt 
gtacgtttt aaacagtat ttctttctg gtcattaaa 
atgtagaac gttagatta agaccacct gtaataaaa 
aaacaaaat aaatgttat tgtactgt

    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