Status
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Gene information
General information
TC006129 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: 2828035..2832049
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
    		TC006129
    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 *
    {{ 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_04072

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006129 RA
      MHRFSIVFL LFWLNLCQC KYLEGEIHT SDNWAFLAR 
FCFLSEDGQ FEYFLEFSD EQGNPNLLL YYDTDDQWP 
AVYKTNKNC YEKEAVLHV EQNQIINLT TTNRFYQEL 
SGCTSKPSP LPTPKPKPS TTLLPKKAT KSRKLRPTT 
TIKTTTIAL PTPRTTPTT TEDVTTKFV EDFNYTTLD 
LKSQWEHIE ITKAPIKKR AVRPPPTPQ IRGNTIMCH 
NARKFRSAR ERWWFIALS NCNGTRGIH VKYKILMTN 
GPPGDYWHE HFSADEFYI LPVLMAFSI AYSFLMLGI 
IVCSIELKS RQLLHTTYK IFVVSVIFQ LFGIILTSA 
AYLKYAVNG LGPSPVKRG GAIFMGVSE TLYMLLLLL 
LAKGFTITR GRLPLAASV KLTIFMCLY VVTYISIFI 
YEANVFDPG EVLYLYESP AGYGLIILR VLAWCMFVY 
STVFTLKHY PEKSNFYYP FNVCGTMWF IAGPAFILS 
ANSYIDKWI RESVVCAVL QFITFGGHL TFLILTMPS 
VANKNFPYH VRTTQIGIM ELTGTSGSS TIQQFGHHV 
YEPSGTVRE TVIVPLTRR TEEIFEGMY NQPVHNIRR 
ESLNEDLSN TRNLMMENV INWSLARNI AALEMPNFE 
RIERNSFVA EHSDNESVI TSRRSSQPN GHFDDYVRE 
VPIQLFTVS KMVTGNNDT PNGKTV
    CDS sequence
    • >TC006129 RA
      atgcaccgt ttttccatc gtttttctt ttattttgg 
ctgaatttg tgtcaatgc aaatatcta gaaggcgag 
atacacacc agtgacaat tgggctttt cttgcacgt 
ttttgcttc ttgtcggaa gacggccag tttgaatat 
tttctcgaa tttagtgac gaacaagga aatccaaat 
ttattgctt tattacgat acggacgac caatggccg 
gccgtatac aaaactaat aagaattgt tacgaaaaa 
gaagccgtg cttcacgtc gaacaaaac caaattatc 
aacctaaca acaactaac aggttttat caagaattg 
tcaggttgt acgagcaaa cctagccca cttccgaca 
cccaaaccc aaacctagc acaacctta ttaccgaaa 
aaagcaaca aaaagtcgc aaattacga cctacgact 
acgattaaa acaacaaca atcgcatta ccaacgcct 
agaacaaca cctactaca actgaagat gtgacaaca 
aaatttgtc gaagatttc aattacaca actttagat 
ttaaaaagc caatgggaa cacatcgaa atcactaaa 
gcaccaatc aagaaacga gccgtaagg ccaccaccc 
actccccaa atccgggga aataccatc atgtgtcac 
aacgcccgg aaattccgg agcgcgcgt gaaaggtgg 
tggttcata gctttgagt aattgtaac ggaacgaga 
ggaattcac gtcaagtat aagatttta atgacgaat 
ggaccaccg ggggattac tggcatgag catttctca 
gccgacgaa ttctatatt ctcccagtc ttgatggca 
ttctccatc gcctactcg ttcctaatg ttgggcata 
atcgtctgt tcaattgaa ctaaaatcg cgccaattg 
ttgcacaca acgtacaaa attttcgtc gtttcggtc 
attttccaa ctgtttgga attatttta acaagtgcc 
gcgtatttg aaatacgcc gttaatggg ctaggtcca 
agtcctgta aaacgaggc ggcgccatt ttcatgggc 
gtgtctgag acactatac atgcttctc ctgctctta 
ttggctaag ggctttacg ataacacgc ggccggctc 
ccattggct gccagtgtc aaacttacg attttcatg 
tgtttgtac gtggtgacg tacatttcg atttttatt 
tacgaggcc aatgttttc gatccgggc gaagtcctg 
tacttgtat gaatcaccg gctgggtat ggacttatc 
attttgagg gttttggcc tggtgtatg ttcgtctat 
tcgacggtt tttaccctc aaacattac ccggaaaag 
tcaaatttt tattatccg ttcaatgtg tgtggaacg 
atgtggttc atcgcaggg ccggctttt atactttcg 
gccaattcg tatattgac aagtggatt cgtgagtct 
gtcgtttgt gccgttttg cagtttatc accttcgga 
ggccacctc acgtttctg attttgacg atgccttca 
gtggccaat aaaaatttc ccgtaccac gtccggact 
actcagatc ggtataatg gaactaacc ggaacttcc 
ggcagtagt accatccaa cagttcggt catcacgtc 
tacgaaccg tcaggtaca gtccgtgaa acagtgatt 
gtacctttg acacgtcga actgaagaa atatttgaa 
ggaatgtac aatcaaccg gtgcacaat attcgtagg 
gagagttta aatgaagac ttgagtaac actagaaac 
ttaatgatg gaaaatgta attaattgg tcattggcg 
cgaaatatt gcagcttta gaaatgccc aatttcgag 
cgaattgaa cgcaacagt tttgttgca gaacattca 
gacaacgaa tcggttata accagtcga cgatcatcg 
caacccaat ggccacttt gacgattac gtccgagaa 
gtgccgatt caattgttt acggttagc aaaatggta 
accggcaat aatgacact cctaatgga aaaactgtt 
taa
    mRNA sequence
    • >TC006129 RA
      tggctaaaa aataaattt cctccgacc ttcagctgt 
tttaaatgc gttgccttt ggcgtaacc atggctacc 
attgattcc gcacaaatg tacacaatc gaagatttt 
ccaaaatgc accgttttt ccatcgttt ttcttttat 
tttggctga atttgtgtc aatgcaaat atctagaag 
gcgagatac acaccagtg acaattggg cttttcttg 
cacgttttt gcttcttgt cggaagacg gccagtttg 
aatattttc tcgaattta gtgacgaac aaggaaatc 
caaatttat tgctttatt acgatacgg acgaccaat 
ggccggccg tatacaaaa ctaataaga attgttacg 
aaaaagaag ccgtgcttc acgtcgaac aaaaccaaa 
ttatcaacc taacaacaa ctaacaggt tttatcaag 
aattgtcag gttgtacga gcaaaccta gcccacttc 
cgacaccca aacccaaac ctagcacaa ccttattac 
cgaaaaaag caacaaaaa gtcgcaaat tacgaccta 
cgactacga ttaaaacaa caacaatcg cattaccaa 
cgcctagaa caacaccta ctacaactg aagatgtga 
caacaaaat ttgtcgaag atttcaatt acacaactt 
tagatttaa aaagccaat gggaacaca tcgaaatca 
ctaaagcac caatcaaga aacgagccg taaggccac 
cacccactc cccaaatcc ggggaaata ccatcatgt 
gtcacaacg cccggaaat tccggagcg cgcgtgaaa 
ggtggtggt tcatagctt tgagtaatt gtaacggaa 
cgagaggaa ttcacgtca agtataaga ttttaatga 
cgaatggac caccggggg attactggc atgagcatt 
tctcagccg acgaattct atattctcc cagtcttga 
tggcattct ccatcgcct actcgttcc taatgttgg 
gcataatcg tctgttcaa ttgaactaa aatcgcgcc 
aattgttgc acacaacgt acaaaattt tcgtcgttt 
cggtcattt tccaactgt ttggaatta ttttaacaa 
gtgccgcgt atttgaaat acgccgtta atgggctag 
gtccaagtc ctgtaaaac gaggcggcg ccattttca 
tgggcgtgt ctgagacac tatacatgc ttctcctgc 
tcttattgg ctaagggct ttacgataa cacgcggcc 
ggctcccat tggctgcca gtgtcaaac ttacgattt 
tcatgtgtt tgtacgtgg tgacgtaca tttcgattt 
ttatttacg aggccaatg ttttcgatc cgggcgaag 
tcctgtact tgtatgaat caccggctg ggtatggac 
ttatcattt tgagggttt tggcctggt gtatgttcg 
tctattcga cggttttta ccctcaaac attacccgg 
aaaagtcaa atttttatt atccgttca atgtgtgtg 
gaacgatgt ggttcatcg cagggccgg cttttatac 
tttcggcca attcgtata ttgacaagt ggattcgtg 
agtctgtcg tttgtgccg ttttgcagt ttatcacct 
tcggaggcc acctcacgt ttctgattt tgacgatgc 
cttcagtgg ccaataaaa atttcccgt accacgtcc 
ggactactc agatcggta taatggaac taaccggaa 
cttccggca gtagtacca tccaacagt tcggtcatc 
acgtctacg aaccgtcag gtacagtcc gtgaaacag 
tgattgtac ctttgacac gtcgaactg aagaaatat 
ttgaaggaa tgtacaatc aaccggtgc acaatattc 
gtagggaga gtttaaatg aagacttga gtaacacta 
gaaacttaa tgatggaaa atgtaatta attggtcat 
tggcgcgaa atattgcag ctttagaaa tgcccaatt 
tcgagcgaa ttgaacgca acagttttg ttgcagaac 
attcagaca acgaatcgg ttataacca gtcgacgat 
catcgcaac ccaatggcc actttgacg attacgtcc 
gagaagtgc cgattcaat tgtttacgg ttagcaaaa 
tggtaaccg gcaataatg acactccta atggaaaaa 
ctgtttaat tagcacaaa ttttgtaaa tttggaact 
ttttacaag tccagaatc gacgaacta aagcaatag 
gaatataca gttttgtgt aat

    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