Status
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Gene information
General information
TC004831 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: 2540684..2543120
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
    		TC004831
    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
    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_00774

    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)

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

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 11.11% (includes death as larva, prepupa, pupa, adult)

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

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004831 RA
      MTILEDNVI PLRSKLRLP TQNQAPKRE GSFLEAPYR 
KRQELDMLN GYRAPEAGD FPVATLANM GNTCFLNSV 
LYTLRYAPT FLHNLHHLI GDLALVSSR LSQTKAKTS 
SLGRNVGAI TGPSSRSTS SKDLLALSS SDIIPKSKV 
QIVTEKLHE LYVTMHNLE VKESSDAYQ PVALLQAIR 
EANSIFEGN HQQDAHELL VYLLDNIRE TCDLLTQQV 
QQNPDLLTE SEIIPSPNS SKIWSVRRS WKITKKKEK 
NAKEAISEE QVNGASVTD TEDACSVDG GGDNNKKKL 
GYNFVAEDF EGVTLRRTR CLECESVTE RKEPFYDIP 
VPIPVKDTD FEPDSASEI YRKACVTSE KLCDANKYL 
CEKCQRYNE ASRDVLFEK LPNIMVLQL KRFTTSSAG 
VQKVNTYLP TPLELECFC ESCCNVEED ETPPHRYRL 
CCVIMHLGA SMASGHYIA YVKASDHFE DYVECSRNM 
PKGSLSASS SEKSLNILK FFKPRTIGS LSENKSILS 
KSVVNGVRM CKSMDCCGV KINKNVVEN VVNSYPRNK 
EDFCNGGPE DMWLECDDE SVKPITSQE FKEELAFKP 
NSTSTPYLL FYSKITDIP LD
    CDS sequence
    • >TC004831 RA
      atgacaatt ctggaagat aacgtaatc cccttgcgt 
agcaaacta cgtctcccg acgcaaaat caggccccg 
aagcgcgaa ggctcattc ctcgaagcc ccctatcgc 
aagcgccag gagctggac atgttgaac ggctatcgg 
gcccccgaa gcgggcgat ttcccagtc gccaccctc 
gcgaacatg ggcaacacg tgcttcctc aacagcgtt 
ctgtacact ctgcgctac gccccgacg ttcctacat 
aacctccac cacctgatc ggcgacctg gcgctcgta 
agctcgcgc ctcagccag accaaagcc aagacctca 
tcgctgggg cgcaacgtg ggggccatc acgggcccc 
agctcgcgc agcaccagc agcaaggac ttgctcgcc 
ttgagctcc tccgacatt atccccaag tctaaggtg 
caaatcgtc accgagaag ctgcacgag ctctacgtc 
acgatgcac aatttggag gtgaaggag tcgagcgat 
gcctaccaa cctgttgca ctcctccaa gccattcgg 
gaggcgaat tcgattttc gaagggaac caccagcaa 
gacgcccat gagttgctc gtctacttg ttggataat 
ataagggag acatgtgac ttgcttacg caacaagtg 
caacaaaac cccgatttg ttgactgag agtgagatc 
attccctcg cccaacagc agcaagatt tggagtgtg 
cgacgttcg tggaaaatc acgaagaag aaggaaaag 
aacgcgaag gaggctata agtgaggag caagtcaac 
ggtgcgagt gtcactgac acggaggac gcctgttcc 
gtcgacgga ggcggcgat aacaacaag aagaagctg 
gggtacaac ttcgtcgca gaggacttc gaaggtgtg 
accctccgg cgcaccagg tgtctcgaa tgcgagagc 
gtgaccgag cgcaaggag ccgttctac gacatcccg 
gtgccaatc cccgtcaaa gacaccgat ttcgagccg 
gactctgcg agcgaaatc taccgcaaa gcgtgtgtc 
actagtgaa aagttgtgc gatgccaat aaatatttg 
tgtgagaag tgccagcgt tataatgag gctagtcgt 
gacgtcctc ttcgagaaa ctcccgaat attatggtc 
ctgcaactc aagcgcttc accacgtct tccgccggc 
gtgcagaaa gtcaacact tacctcccg acgccgctc 
gaactggag tgcttttgc gagtcgtgt tgcaacgtg 
gaggaggac gagacgccc ccgcatcgc taccgcctg 
tgctgcgtt atcatgcac ctgggggcg tccatggcc 
tcgggccac tacatcgcc tacgtgaag gcgtccgat 
cacttcgag gactacgtc gagtgctcc aggaatatg 
cccaagggg agtttgtcg gcgagcagc agcgagaag 
tcgctcaac attttgaag ttttttaag cccaggacg 
atagggtcg ttaagtgag aacaagagt attttgtcg 
aaaagtgtg gtgaacggt gtgaggatg tgcaaaagt 
atggactgt tgtggcgtt aaaattaat aaaaatgtg 
gtggagaac gttgttaac tcttatccg aggaacaaa 
gaggatttt tgcaacggc gggcccgag gatatgtgg 
ttggagtgc gatgatgaa agtgttaaa cccataacg 
agtcaagag tttaaggag gagttggcg ttcaaaccc 
aactccacc tcgacgccc tacttgctg ttctattcc 
aaaattact gatatacct ttagattaa
    mRNA sequence
    • >TC004831 RA
      ggaaatgtt aagcaagtc tccggtgtg gagtgtgtc 
actaatgat tgctaatta ccgcaatta ataggcttt 
ttccactgt aatgaattc aaaagccca acatttatc 
caacgattg agccaccgt cacacatgt ttggacaag 
aagatgaca attctggaa gataacgta atccccttg 
cgtagcaaa ctacgtctc ccgacgcaa aatcaggcc 
ccgaagcgc gaaggctca ttcctcgaa gccccctat 
cgcaagcgc caggagctg gacatgttg aacggctat 
cgggccccc gaagcgggc gatttccca gtcgccacc 
ctcgcgaac atgggcaac acgtgcttc ctcaacagc 
gttctgtac actctgcgc tacgccccg acgttccta 
cataacctc caccacctg atcggcgac ctggcgctc 
gtaagctcg cgcctcagc cagaccaaa gccaagacc 
tcatcgctg gggcgcaac gtgggggcc atcacgggc 
cccagctcg cgcagcacc agcagcaag gacttgctc 
gccttgagc tcctccgac attatcccc aagtctaag 
gtgcaaatc gtcaccgag aagctgcac gagctctac 
gtcacgatg cacaatttg gaggtgaag gagtcgagc 
gatgcctac caacctgtt gcactcctc caagccatt 
cgggaggcg aattcgatt ttcgaaggg aaccaccag 
caagacgcc catgagttg ctcgtctac ttgttggat 
aatataagg gagacatgt gacttgctt acgcaacaa 
gtgcaacaa aaccccgat ttgttgact gagagtgag 
atcattccc tcgcccaac agcagcaag atttggagt 
gtgcgacgt tcgtggaaa atcacgaag aagaaggaa 
aagaacgcg aaggaggct ataagtgag gagcaagtc 
aacggtgcg agtgtcact gacacggag gacgcctgt 
tccgtcgac ggaggcggc gataacaac aagaagaag 
ctggggtac aacttcgtc gcagaggac ttcgaaggt 
gtgaccctc cggcgcacc aggtgtctc gaatgcgag 
agcgtgacc gagcgcaag gagccgttc tacgacatc 
ccggtgcca atccccgtc aaagacacc gatttcgag 
ccggactct gcgagcgaa atctaccgc aaagcgtgt 
gtcactagt gaaaagttg tgcgatgcc aataaatat 
ttgtgtgag aagtgccag cgttataat gaggctagt 
cgtgacgtc ctcttcgag aaactcccg aatattatg 
gtcctgcaa ctcaagcgc ttcaccacg tcttccgcc 
ggcgtgcag aaagtcaac acttacctc ccgacgccg 
ctcgaactg gagtgcttt tgcgagtcg tgttgcaac 
gtggaggag gacgagacg cccccgcat cgctaccgc 
ctgtgctgc gttatcatg cacctgggg gcgtccatg 
gcctcgggc cactacatc gcctacgtg aaggcgtcc 
gatcacttc gaggactac gtcgagtgc tccaggaat 
atgcccaag gggagtttg tcggcgagc agcagcgag 
aagtcgctc aacattttg aagtttttt aagcccagg 
acgataggg tcgttaagt gagaacaag agtattttg 
tcgaaaagt gtggtgaac ggtgtgagg atgtgcaaa 
agtatggac tgttgtggc gttaaaatt aataaaaat 
gtggtggag aacgttgtt aactcttat ccgaggaac 
aaagaggat ttttgcaac ggcgggccc gaggatatg 
tggttggag tgcgatgat gaaagtgtt aaacccata 
acgagtcaa gagtttaag gaggagttg gcgttcaaa 
cccaactcc acctcgacg ccctacttg ctgttctat 
tccaaaatt actgatata cctttagat taatttttg 
cgttgaagc acttaggta agatcaatt atttaggaa 
gtacaaaac ccctcgact aactgaatg tgatattca 
aagaatctt tatctataa attctgtta tgcacgtcc 
aagtctttg ggcccgtgc aaaaataat tgtttcctt 
gatattgcg caaaatttg taatgtatg gctgtgaga 
cacatttct ttaagttgt tcgcatgtt tttagtaat 
tatttttct aaaagttga taggttcta aacatttag 
atcgaacag ttcgaatgg tagttgagg ataattcca 
ttaaaaaaa ggtccgcaa tggaccgct ttatacgag 
taggtccta aataccatt acgaacctt ttcctgcgt 
caaggaatt ctgacctca tcacaaaac ttgtcatga 
ttattacaa ctttgcgat tgtaatatt aaacgttaa 
tcactcca

    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