Status
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Gene information
General information
TC001722 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: 8418406..8464013
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
    		TC001722
    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_03238

    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: 10.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult nutritional state potentially bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    Fertility
    egg chamber decreased - 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: % (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
    • >TC001722 RA
      MALVASSWR ESSLVNPIP TSLNSLPNG LNPLPPTAN 
LTALPANIN PITLENPDL ALVNRQTPS QNSQNSATS 
ADKNQNIEC VVCGDKSSG KHYGQFTCE GCKSFFKRS 
VRRNLTYSC RGSRNCPID QHHRNQCQY CRLKKCMKM 
GMRREAVQR GRVPPSQPA LPGLPNQFL NSTDSVTSS 
LSNHTYLSS YISLLLRAE PYPTSRYGQ CIQANNIMG 
IDNICELAA RLLFSAVEW ARNIPFFPD LQVTDQVAL 
LRLVWSELF VLNASQCSM PLHVAPLIA AAGLHASPM 
CADRVVQFM DHIRIFQEQ VEKLKALHV DSAEYSCLK 
AIVLFTTDA CGLSDVAHI ESIQEKSQC ALEEYCRSQ 
YPNQPTRFG KLLLRLPSL RTVSSAVIE QLFFVRLVG 
KTPIETLIR DMLLSGSSF SWPYM
    CDS sequence
    • >TC001722 RA
      atggctctg gtggccagc tcctggcgc gagtcctcg 
cttgtgaac cccattccc accagcttg aactcgctg 
cccaacggc ctcaacccg ctcccgccg accgccaac 
ctgaccgcg ctgcccgcc aacatcaac cccatcacg 
ctggaaaac ccagatctt gcgcttgtt aaccggcaa 
actccctcg cagaactcc cagaacagc gccaccagt 
gccgacaag aaccagaac atcgagtgc gttgtttgc 
ggggataaa agctcgggg aagcactac ggacaattc 
acgtgtgaa ggttgcaag tcatttttc aagaggagt 
gttcgaagg aatctaaca tattcgtgt cgaggaagc 
aggaattgc cctatcgac caacaccac aggaatcaa 
tgtcaatat tgtcgctta aaaaaatgc atgaagatg 
ggaatgagg agagaagcc gtccagcga ggtcgagtg 
cccccatct cagccagct cttccaggt ttaccaaat 
caatttctc aactccact gattcagta acctcctct 
ctaagtaac cacacttac cttagtagt tacatttcg 
ttattacta agggcagag ccttacccc acaagtcgg 
tatggccaa tgcatacaa gctaataat atcatgggt 
atcgacaat atctgcgaa ttggcagcg cgtctcctt 
ttttcggca gtcgaatgg gccagaaat attccattt 
tttcccgac ttacaagtc acagatcag gttgcgtta 
cttcgatta gtatggtca gaactgttt gttttaaat 
gctagtcag tgttctatg ccacttcat gtggcacca 
ctgatagca gcagccggt ttacatgca tcacccatg 
tgtgcagac cgagttgtt caatttatg gatcacatt 
aggatattt caggaacaa gtagaaaaa ttaaaagcg 
cttcatgtc gattcagct gaatattca tgccttaaa 
gctatagtc ctatttacg actgatgcc tgtggtttg 
agtgacgtg gcccacatc gagtccatc caggagaaa 
tctcaatgc gctctggag gagtattgt cgatcgcaa 
taccccaac caaccaacg agattcggc aagttactc 
ctgcgactc cccagttta cggacagtc agttctgcg 
gttatagaa cagttgttt tttgtaagg ttggtagga 
aaaactcct attgagacc ttgataaga gacatgtta 
ctctctgga agctcgttt tcgtggccg tacatgtga
    mRNA sequence
    • >TC001722 RA
      tagaggcta gagtgtgcc gtggggttg acctatcac 
ctccaacgc gagatacgt gctcagctc gcagccgcg 
aacgtcaag tgcaagtcc gtgaacgca cacccagga 
gtccgcgat ctggtgaac tggtgaact gtgaactcg 
acggtcatg agtgcgtga gtgacgtgg aaccgccga 
cgtcgccat ggctctggt ggccagctc ctggcgcga 
gtcctcgct tgtgaaccc cattcccac cagcttgaa 
ctcgctgcc caacggcct caacccgct cccgccgac 
cgccaacct gaccgcgct gcccgccaa catcaaccc 
catcacgct ggaaaaccc agatcttgc gcttgttaa 
ccggcaaac tccctcgca gaactccca gaacagcgc 
caccagtgc cgacaagaa ccagaacat cgagtgcgt 
tgtttgcgg ggataaaag ctcggggaa gcactacgg 
acaattcac gtgtgaagg ttgcaagtc atttttcaa 
gaggagtgt tcgaaggaa tctaacata ttcgtgtcg 
aggaagcag gaattgccc tatcgacca acaccacag 
gaatcaatg tcaatattg tcgcttaaa aaaatgcat 
gaagatggg aatgaggag agaagccgt ccagcgagg 
tcgagtgcc cccatctca gccagctct tccaggttt 
accaaatca atttctcaa ctccactga ttcagtaac 
ctcctctct aagtaacca cacttacct tagtagtta 
catttcgtt attactaag ggcagagcc ttaccccac 
aagtcggta tggccaatg catacaagc taataatat 
catgggtat cgacaatat ctgcgaatt ggcagcgcg 
tctcctttt ttcggcagt cgaatgggc cagaaatat 
tccattttt tcccgactt acaagtcac agatcaggt 
tgcgttact tcgattagt atggtcaga actgtttgt 
tttaaatgc tagtcagtg ttctatgcc acttcatgt 
ggcaccact gatagcagc agccggttt acatgcatc 
acccatgtg tgcagaccg agttgttca atttatgga 
tcacattag gatatttca ggaacaagt agaaaaatt 
aaaagcgct tcatgtcga ttcagctga atattcatg 
ccttaaagc tatagtcct atttacgac tgatgcctg 
tggtttgag tgacgtggc ccacatcga gtccatcca 
ggagaaatc tcaatgcgc tctggagga gtattgtcg 
atcgcaata ccccaacca accaacgag attcggcaa 
gttactcct gcgactccc cagtttacg gacagtcag 
ttctgcggt tatagaaca gttgttttt tgtaaggtt 
ggtaggaaa aactcctat tgagacctt gataagaga 
catgttact ctctggaag ctcgttttc gtggccgta 
catgtgata cttgaaact atactaggt gtactagtc 
aacagtcgt acgtaggta tattttttg gaagcggct 
caacacaaa gacttccta gtgataacc tatgataag 
tgtttccgg tggcagtga tactccacg atatttctt 
tcaagggac aatgctgat cactgatca cttgatcag 
gcaataagc gaatcacat atcaaagaa gtaatcaac 
ctgatatca cattgccaa aaaactgag ttaatgctc 
ggatcaata catgttcct ttttatata acgaatcag 
ttaaagtgg aaatataat tactttacc acgtatata 
aatgtgtat tagtaatac agggtgatt cttttaggg 
cctacatta gaaaatttt taacttcca atgtagtta 
tggctttga aattttgta tacgatcca aatcgacaa 
ttttgagct caactgaat tattttcaa attcagttg 
aactcagaa tggccgatt tggatcgta aacaaaatt 
tcaaagctc tagctgcat tagaagaat cagcctgta 
tattttact ggaatttgt atcatatgt aaatacgta 
ggttttctc atgagagcg ttattattg ttttgattt 
ccccaattt agtcagtgt tcacatttg ttttttatg 
gtttaagta gttgtttgt tattagttg ttatcacga 
ttgttgtta tgacttttc acttatttt ttatattta 
tcttctctt aatacgata gatggccag tttttgtaa 
agtatttta cttaattca aaaaattcg tacttagac 
tgtcaatct taaacaaat caaaagatc aaaagccat 
acgttgatt taagttaag tttctaaat ataactgtc 
tcctgtttt agttcccca aatagaata gtttttagt 
gcaatttta ctttttaaa tacaaatgt tttactcac 
ttatttatt gatatttct tataaaacg ttatgttta 
tagtcctag aaatataaa aaacgtgaa ttagaatat 
atttggctt tcaacaaag gccagtgcc aatatcgat 
tattagtcg attttaatc atagtacat ttattcggg 
atttcttta tgtttgtaa gaaaccgtg tatataatg

    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