Status
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Gene information
General information
TC031524 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: 4638656..4642181
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
      		TC031524
      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_06596

      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 (with pupal and adult features) - 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

      remarks: eggs lost,
      Adult morphology
      remarks: eggs lost,
      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: < 20
       remarks: eggs lost,
      remarks - cuticles: later than schedule,
       
      8 days later, due to lost eggs in day 9
       

      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
      • >TC031524 RA
        MAYKPEGLF EHILIHYRW VFVCLFLLP ASFFFDIWL 
YVRNWIVFK LSSAPKQHH SKVKHVQTQ VRNWIKNGR 
KQFMCTARP GWQTVSFRR PKYKKTMYN VEVNLVDVL 
DINLEKKTV RVEPLVTMG QLTATLNPL GWTIPVVPE 
LDDLTVGGL VMGTGIESS SHKYGLFQH ICVSYELVL 
CDGSVVTCS TQENPNLYY SVPWSYGTL GILTAVEIQ 
LIPAKKYVK LTYKPLKTL DQVTQETES ASKDLNNEF 
VETLVYSKD KAVLMTGIQ TDQVDENKV NAIGKWYKP 
WFFKHVEGM LETNKTVVE YIPLRDYYH RHTRSIFWE 
LQDIIPFGN NLLFRFFLG WIVPPKVSL LKLTQTEAV 
RKLYENNHV IQDMLVPIE TLKASIEKF HEVLEIYPM 
WICPFKLPP NPGMVHPPL KNYDTDPVY VDIGVYGVP 
KAKNFTPLG STREIEKYV SNGNGFQML YADTYMSRE 
EFRRMFDHR LYDSLRASL GCESAFAEV YDKVSRAAR 
E
      CDS sequence
      • >TC031524 RA
        atggcttac aagccggag ggactcttc gagcacatc 
ctgattcac tacagatgg gttttcgtt tgtcttttc 
ctcttgccc gcctctttc tttttcgat atttggctg 
tacgtccgt aactggatc gttttcaaa ttgagcagt 
gcccccaaa caacatcat tccaaagtg aaacatgta 
caaacccag gtaagaaat tggattaag aatggaaga 
aaacaattt atgtgcaca gccaggcct ggatggcag 
acagtctcc ttcaggagg cccaaatat aagaagact 
atgtacaat gttgaagtc aatctagtt gacgtgctt 
gatattaat ttagagaag aagactgtt cgggttgaa 
cctttagtc accatgggt cagttaacc gcgactttg 
aaccctcta ggctggact attccggtg gtaccggag 
ctcgatgat ttaacagtc ggaggttta gttatgggg 
actggaata gagtcgtct tcgcacaaa tacggcctc 
ttccaacac atttgcgtt tcttacgaa ttagttctt 
tgtgatggt tctgtggta acttgttca actcaagaa 
aacccaaat ttatactat tcagtacct tggtcgtac 
ggcactttg ggtatattg acagccgtt gaaattcag 
ttaatccca gccaaaaaa tacgtcaaa ctgacttac 
aaaccctta aaaaccctg gatcaagta actcaagag 
actgaatca gcaagtaaa gacctgaac aacgaattt 
gtcgaaact ttggtttat agtaaagat aaggcggtg 
ctcatgacc ggcattcaa accgaccaa gttgacgaa 
aataaagtg aatgcgatt ggaaaatgg tacaagcct 
tggtttttc aaacatgtt gaaggcatg ttggaaact 
aataaaact gtggttgaa tacatcccc ttgcgtgac 
tattaccac cgacacacg agatctata ttttgggaa 
cttcaggac attattccc ttcggaaac aacctcctg 
tttaggttt ttcttgggt tggattgtg cccccaaaa 
gtctccctt ttaaaactg acccaaact gaagctgtg 
cgaaaactg tacgagaac aaccacgtc attcaggac 
atgttagta ccgattgaa accctcaaa gcgagcatc 
gagaaattt cacgaggtt ctcgagata taccccatg 
tggatttgc ccttttaag ttaccccca aacccggga 
atggtgcac cctccccta aaaaactac gatacggac 
cccgtttac gtcgatatc ggtgtgtac ggggtaccc 
aaagctaaa aatttcaca ccgcttgga tcgacgaga 
gagatcgaa aaatacgtc agtaatggc aatggtttc 
cagatgctg tatgccgac acatacatg tcccgtgag 
gaatttcgc agaatgttc gaccaccgg ctgtacgac 
tcgctgagg gcttctctg ggctgcgaa tcggccttc 
gccgaggtg tacgacaag gtgagcagg gccgctcgg 
gagtag
      mRNA sequence
      • >TC031524 RA
        tttatcagt tgggtctgt gaacatggc ttacaagcc 
ggagggact cttcgagca catcctgat tcactacag 
atgggtttt cgtttgtct tttcctctt gcccgcctc 
tttcttttt cgatatttg gctgtacgt ccgtaactg 
gatcgtttt caaattgag cagtgcccc caaacaaca 
tcattccaa agtgaaaca tgtacaaac ccaggtaag 
aaattggat taagaatgg aagaaaaca atttatgtg 
cacagccag gcctggatg gcagacagt ctccttcag 
gaggcccaa atataagaa gactatgta caatgttga 
agtcaatct agttgacgt gcttgatat taatttaga 
gaagaagac tgttcgggt tgaaccttt agtcaccat 
gggtcagtt aaccgcgac tttgaaccc tctaggctg 
gactattcc ggtggtacc ggagctcga tgatttaac 
agtcggagg tttagttat ggggactgg aatagagtc 
gtcttcgca caaatacgg cctcttcca acacatttg 
cgtttctta cgaattagt tctttgtga tggttctgt 
ggtaacttg ttcaactca agaaaaccc aaatttata 
ctattcagt accttggtc gtacggcac tttgggtat 
attgacagc cgttgaaat tcagttaat cccagccaa 
aaaatacgt caaactgac ttacaaacc cttaaaaac 
cctggatca agtaactca agagactga atcagcaag 
taaagacct gaacaacga atttgtcga aactttggt 
ttatagtaa agataaggc ggtgctcat gaccggcat 
tcaaaccga ccaagttga cgaaaataa agtgaatgc 
gattggaaa atggtacaa gccttggtt tttcaaaca 
tgttgaagg catgttgga aactaataa aactgtggt 
tgaatacat ccccttgcg tgactatta ccaccgaca 
cacgagatc tatattttg ggaacttca ggacattat 
tcccttcgg aaacaacct cctgtttag gtttttctt 
gggttggat tgtgccccc aaaagtctc ccttttaaa 
actgaccca aactgaagc tgtgcgaaa actgtacga 
gaacaacca cgtcattca ggacatgtt agtaccgat 
tgaaaccct caaagcgag catcgagaa atttcacga 
ggttctcga gatataccc catgtggat ttgcccttt 
taagttacc cccaaaccc gggaatggt gcaccctcc 
cctaaaaaa ctacgatac ggaccccgt ttacgtcga 
tatcggtgt gtacggggt acccaaagc taaaaattt 
cacaccgct tggatcgac gagagagat cgaaaaata 
cgtcagtaa tggcaatgg tttccagat gctgtatgc 
cgacacata catgtcccg tgaggaatt tcgcagaat 
gttcgacca ccggctgta cgactcgct gagggcttc 
tctgggctg cgaatcggc cttcgccga ggtgtacga 
caaggtgag cagggccgc tcgggagta ggaactgaa 
gaaaccact ggagctgca ctatttgct ttcggaagt 
cacggcctg tggccatca tcattccag aaataaaga 
atgttgaaa aga

      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