Status
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Gene information
General information
TC004609 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_007416.3: 6655511..6659555
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
    		TC004609
    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_00734

    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

    Fertility
    egg chamber complete not present - Number of animals showing the phenotype: 4

    egg chamber potentially fused - Number of animals showing the phenotype: 4
    vitellarium shape irregular - Number of animals showing the phenotype: 4
    vitellarium size increased - Number of animals showing the phenotype: 4
    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: 20.0% (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: 2 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 8 (16 dpi)
    Days post injection

    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 6 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004609 RA
      MNDHFGLKW DPKNLEIRT MSVEKTLEP LVLQVTTLV 
NTKGPSKKK KGKSKRANA LVSTVEKAT ENFIEKGEQ 
IAYENPDIT QEMLSAVEE VRKTGNAMS IAAREFSED 
PCSSLKRGN MVRAARNLL SAVTRLLIL ADMVDVHLL 
LKSLHVVEN DIEKLKNAS SQGELLDNI KAFGQNANE 
LMNQAAKRQ QELKDPQLR DDLAAARAV LKKHSTMLL 
TASKVYVRH PELAAAKAN RDYVLKQVC EAVNTINDV 
AQGRTPQPA TGPYDGPGE LAAALDDFD DHMVMEPLA 
YNEVHTRPS LEERLESII SGAALMADS SCTRDERRE 
RIVAECNAV RQALQDLLS EYMSNIGNK EKSESLNRA 
IDNMGRKTR DLRRQLRKA VVDHVSDSF LETNVPLLV 
LIKAAQNGN EKEVEEFAV MFTEHSNKL VEVANLVCS 
MSNNEDGVK MVRYAAAQI DNLCPEVIN AARILAARP 
RSKVAQENM DAFKQSWEN QVRILTEAV DDITTIDDF 
LAVSENHIL EDVNKCVLA LQEGDADTL DRTAGGIRG 
RSNRVCNVV TAEMDNYEP CIYTKRVLE AVKVLNDQV 
MPKFSQRVQ VAVQALSSV PTKEVDEND FIDASRLVY 
DGVREIRRA VLMNRADED LDPEDVELD ENYTLETRS 
KSSAHTGEH GVDEYPDIS GITTAREAM GKMPEEDKQ 
KILQQVEYF RSEKLKFDR EVAKWDDTG NDIIVLAKH 
MCMIMMEMT DFTRGRGPL KTTMDVINA AKKISEAGT 
KLDKLTRQI AEQCPESST KKDLLAYLQ RIALYCHQM 
NITSKVKAD VQNISGELI VSGLDSATS LIQAAKNLM 
NAVVLTVKA SYVASTKYP RQGTISSPI VVWKMKAPE 
KKPLVRPEK PEEVRAKVR KGSQKKVQN PIHALSEFQ 
SPTESI
    CDS sequence
    • >TC004609 RA
      atgaatgat cattttggg ttaaagtgg gacccgaag 
aatttagaa ataaggaca atgtcagtt gaaaagaca 
ttggagcct ttggtttta caagtcacg actcttgta 
aataccaaa ggccccagc aaaaagaaa aagggcaag 
tcgaagaga gctaacgct cttgtcagc accgtggag 
aaggccacg gagaatttt attgaaaaa ggcgaacaa 
atcgcttac gaaaacccc gacataacc caagaaatg 
ctctctgct gttgaggaa gttcgcaaa accggtaac 
gcgatgagt atcgccgct cgtgaattc tctgaagac 
ccttgttcc tccctgaaa cggggcaat atggtgcgt 
gctgcacga aatcttctt tccgctgta acccgtctt 
ttgattttg gctgacatg gtcgatgtt catctcttg 
ctcaaatcg cttcacgtc gtcgagaac gatatcgaa 
aaactgaaa aatgcgtca agtcaaggc gaactttta 
gataatatc aaggccttt ggccagaat gccaacgaa 
ctgatgaat caggcagct aagcgccaa caggagttg 
aaggatcct cagctgaga gatgattta gctgctgct 
cgtgctgta cttaagaaa cattccact atgttactg 
acagcttca aaagtctac gtccgtcat ccggagttg 
gcagctgcg aaagctaac cgtgattat gtgctgaag 
caagtctgt gaagctgtt aatacgatc aatgatgtc 
gctcaagga cggacaccg cagccggct acaggccca 
tacgatggt cctggagaa ttagctgca gctctggat 
gactttgac gatcatatg gttatggag ccgttggct 
tacaacgag gttcacacg agaccgtct ctggaggaa 
cgtttggag agtatcatt agtggtgca gctcttatg 
gccgactcc agctgcacc cgagacgaa agaagggaa 
cgtatagtt gccgaatgt aatgctgtc cgtcaagca 
cttcaggac ttgctttct gagtacatg tcaaacatc 
ggcaataag gaaaagagc gaaagtttg aatcgagcc 
atcgacaat atgggccgc aaaactcgc gatctgaga 
cggcagttg cgcaaagct gtcgtcgac cacgtttct 
gacagtttt ctcgaaaca aacgttcct ctcttggtt 
ttgatcaaa gccgctcaa aatggtaac gagaaggaa 
gtcgaggag tttgccgtt atgttcact gaacactcg 
aataagctc gtcgaagtt gccaacttg gtgtgcagt 
atgtcaaat aacgaggac ggtgtcaaa atggttcgc 
tacgcagcg gcacagatt gacaacctc tgtccggaa 
gtaatcaac gctgctagg attctagca gcgcgacca 
cgtagcaaa gttgctcaa gaaaacatg gacgctttt 
aaacaatca tgggagaat caagtccgg attttgact 
gaagcagtt gacgatatt acaacaatt gatgacttt 
ttggctgta tcggaaaat catattcta gaagatgta 
aataagtgt gtgttggcg ttgcaagaa ggcgatgcc 
gataccttg gacagaact gcaggaggt attagaggg 
cgctcaaat cgtgtctgt aatgttgtc actgctgaa 
atggataat tatgaacct tgtatttac actaagcgc 
gttttggaa gccgttaaa gtattaaac gatcaagtg 
atgcccaaa tttagtcaa agggtccaa gttgccgtt 
caagctttg tctagcgtt cccaccaaa gaggttgac 
gagaatgat tttattgac gcatcacga ttggtgtac 
gatggagtg cgtgaaatt agaagagcc gtcctgatg 
aatagagct gatgaagat ttggacccc gaagatgta 
gaattggat gaaaattat acattagaa acccgtagc 
aaatcgagt gctcacact ggcgaacat ggtgtggat 
gaatatcct gacatcagt ggtattacc acggctaga 
gaagctatg gggaaaatg cctgaggag gacaaacaa 
aaaatcctc caacaggta gaatatttc cgtagcgaa 
aaactcaaa tttgacaga gaagtcgcc aagtgggac 
gataccggt aatgatatt atcgttttg gctaaacat 
atgtgcatg attatgatg gagatgacg gattttaca 
cgtggacgt ggacctctg aaaactaca atggacgtc 
ataaacgcg gcgaaaaaa atttcagaa gccggaaca 
aaattggac aaattgaca cgtcaaatt gccgagcaa 
tgtccggag agttctacc aagaaagat cttttggcc 
tatttgcaa cgtattgct ttatattgc caccaaatg 
aacattacg tcgaaagtt aaggctgat gttcagaat 
ataagtgga gaattgatc gtttcaggg cttgacagc 
gccacttcg ctcattcaa gctgcaaag aatctcatg 
aatgctgta gtattgact gtaaaggcg tcatatgta 
gcatccacc aaatatccg cggcaaggg accatttcg 
tcgccaatt gtcgtctgg aagatgaaa gcaccggaa 
aagaaaccg ctagtaaga cctgaaaag cctgaagaa 
gttcgggct aaagtccgt aaagggtcg caaaagaag 
gtgcagaat cctatacat gcgctttct gaattccaa 
agcccaaca gaatcaatt taa
    mRNA sequence
    • >TC004609 RA
      gttcttgtg ccaacttta cactgacgc tagttagaa 
ataatttat acacaaaag tcctttttt tccgttgtt 
tggtttatg attaacaaa aagtcttat tcaattatt 
ttggatgta cagtaaggt tgtcatttg ataagataa 
agttgagta ttgataaga aaagtgaca ttacaagta 
gtgggagtg gttcaattt gatgttttg ttagtatgg 
ctactctgg agtgaggta gaggtatgt aattttttc 
agtcatgaa ctaatgact gttcagtgg tgattcatc 
gtcacagtt tattgcagt tgagtgtct ggaattttt 
acttaaagt aaaatctct gtgtgtgat aggagggaa 
gaatcttgg gaaaaatag atctgccat aatgaatga 
tcattttgg gttaaagtg ggacccgaa gaatttaga 
aataaggac aatgtcagt tgaaaagac attggagcc 
tttggtttt acaagtcac gactcttgt aaataccaa 
aggccccag caaaaagaa aaagggcaa gtcgaagag 
agctaacgc tcttgtcag caccgtgga gaaggccac 
ggagaattt tattgaaaa aggcgaaca aatcgctta 
cgaaaaccc cgacataac ccaagaaat gctctctgc 
tgttgagga agttcgcaa aaccggtaa cgcgatgag 
tatcgccgc tcgtgaatt ctctgaaga cccttgttc 
ctccctgaa acggggcaa tatggtgcg tgctgcacg 
aaatcttct ttccgctgt aacccgtct tttgatttt 
ggctgacat ggtcgatgt tcatctctt gctcaaatc 
gcttcacgt cgtcgagaa cgatatcga aaaactgaa 
aaatgcgtc aagtcaagg cgaactttt agataatat 
caaggcctt tggccagaa tgccaacga actgatgaa 
tcaggcagc taagcgcca acaggagtt gaaggatcc 
tcagctgag agatgattt agctgctgc tcgtgctgt 
acttaagaa acattccac tatgttact gacagcttc 
aaaagtcta cgtccgtca tccggagtt ggcagctgc 
gaaagctaa ccgtgatta tgtgctgaa gcaagtctg 
tgaagctgt taatacgat caatgatgt cgctcaagg 
acggacacc gcagccggc tacaggccc atacgatgg 
tcctggaga attagctgc agctctgga tgactttga 
cgatcatat ggttatgga gccgttggc ttacaacga 
ggttcacac gagaccgtc tctggagga acgtttgga 
gagtatcat tagtggtgc agctcttat ggccgactc 
cagctgcac ccgagacga aagaaggga acgtatagt 
tgccgaatg taatgctgt ccgtcaagc acttcagga 
cttgctttc tgagtacat gtcaaacat cggcaataa 
ggaaaagag cgaaagttt gaatcgagc catcgacaa 
tatgggccg caaaactcg cgatctgag acggcagtt 
gcgcaaagc tgtcgtcga ccacgtttc tgacagttt 
tctcgaaac aaacgttcc tctcttggt tttgatcaa 
agccgctca aaatggtaa cgagaagga agtcgagga 
gtttgccgt tatgttcac tgaacactc gaataagct 
cgtcgaagt tgccaactt ggtgtgcag tatgtcaaa 
taacgagga cggtgtcaa aatggttcg ctacgcagc 
ggcacagat tgacaacct ctgtccgga agtaatcaa 
cgctgctag gattctagc agcgcgacc acgtagcaa 
agttgctca agaaaacat ggacgcttt taaacaatc 
atgggagaa tcaagtccg gattttgac tgaagcagt 
tgacgatat tacaacaat tgatgactt tttggctgt 
atcggaaaa tcatattct agaagatgt aaataagtg 
tgtgttggc gttgcaaga aggcgatgc cgatacctt 
ggacagaac tgcaggagg tattagagg gcgctcaaa 
tcgtgtctg taatgttgt cactgctga aatggataa 
ttatgaacc ttgtattta cactaagcg cgttttgga 
agccgttaa agtattaaa cgatcaagt gatgcccaa 
atttagtca aagggtcca agttgccgt tcaagcttt 
gtctagcgt tcccaccaa agaggttga cgagaatga 
ttttattga cgcatcacg attggtgta cgatggagt 
gcgtgaaat tagaagagc cgtcctgat gaatagagc 
tgatgaaga tttggaccc cgaagatgt agaattgga 
tgaaaatta tacattaga aacccgtag caaatcgag 
tgctcacac tggcgaaca tggtgtgga tgaatatcc 
tgacatcag tggtattac cacggctag agaagctat 
ggggaaaat gcctgagga ggacaaaca aaaaatcct 
ccaacaggt agaatattt ccgtagcga aaaactcaa 
atttgacag agaagtcgc caagtggga cgataccgg 
taatgatat tatcgtttt ggctaaaca tatgtgcat 
gattatgat ggagatgac ggattttac acgtggacg 
tggacctct gaaaactac aatggacgt cataaacgc 
ggcgaaaaa aatttcaga agccggaac aaaattgga 
caaattgac acgtcaaat tgccgagca atgtccgga 
gagttctac caagaaaga tcttttggc ctatttgca 
acgtattgc tttatattg ccaccaaat gaacattac 
gtcgaaagt taaggctga tgttcagaa tataagtgg 
agaattgat cgtttcagg gcttgacag cgccacttc 
gctcattca agctgcaaa gaatctcat gaatgctgt 
agtattgac tgtaaaggc gtcatatgt agcatccac 
caaatatcc gcggcaagg gaccatttc gtcgccaat 
tgtcgtctg gaagatgaa agcaccgga aaagaaacc 
gctagtaag acctgaaaa gcctgaaga agttcgggc 
taaagtccg taaagggtc gcaaaagaa ggtgcagaa 
tcctataca tgcgctttc tgaattcca aagcccaac 
agaatcaat ttaagtatt ttttgtaaa atttataca 
tttttatga atttctttt tccaatttt tgccgtaaa 
agatcattt ttttatttt ttgttattt attaatgtt 
acgtcgttg ccaacaaga atttatgta tttatgtgg 
gtaggagca ctatttgca ctgtgggaa atataagca 
atcatgaaa agttttaca tgtttgtaa ccattctat 
ttttgttat ttttctaat gataaatgt tctgaaaat 
taataaaga aagtgtggc ttccaatat ttggatatg 
cttaagtta attctaagt ttactttgc aagaactat 
tacaacttg cgtgcttac ataagtggt aataaacat 
catttttac at

    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