Status
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Gene information
General information
TC006849 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.

NW_015450974.1: 168239..181879
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
      		TC006849
      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_04226

      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

      Analysis of embryonic musculature and early development
      number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

      larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

      affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
      remarks: muscle pattern potentially obscured by segmentation defect,
      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: % (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
      • >TC006849 RA
        MLSCLGRLS PRRQEFLLY MAVSILTVN SVNVVLSEW 
GLYFTDMTE LLKNHPNHM LIDYACFAT RIATAAVIL 
VSLLDSQFA FCSMQIAPN KKDKKKLHG SHEQVSDIE 
YIIPRPKSA KPPTVYNAY SQSWVFESD SASCSNTAE 
SPYLKILEN GTPKPKSKK LQNGVVSDT THLIDNPVV 
HIEEASDDS NSNSDRKLC HMRSFSRSA SPVLSGGSS 
RVNLHQSST NPPIYDCLE SIYRTRLNT GPRDEEHYQ 
APQAMVLRR VESVSPHAE KVQYASLMK ELQRAIVSK 
KEPSVTSPS SDSKSSSKT SSDAEFSKE LEAALQLIQ 
DLESPNTIE TPSVKERPL AVWQTSGSE SEKTLSAVG 
SLAEIASPE GAPTNGKPA VPDSQSTSG YSSPSHPTP 
SWSTTSSLN GSSTDMAYS IHNAHSGTV ISLYSQVNP 
QCKGKSVTL VNINGDPTP IHDAVSTKS GEKNPGWRS 
LLRKKKQPP KLCPELEGA IIKSESLAY LSELELLAR 
HQRNKEIQR EIEERVIQQ LGTPRTESN C
      CDS sequence
      • >TC006849 RA
        atgttgtcc tgtttggga cgcttatcg ccccgacgc 
caggaattc ctcctttac atggccgtc tcaatcctg 
acagtgaac agcgtcaac gtcgtcctg agcgagtgg 
gggctttac ttcacagac atgacggag ctgttgaaa 
aatcatccc aatcacatg ctgattgac tacgcatgt 
tttgccaca cggatcgcc acagccgcc gtcatctta 
gtctccctt ctcgacagt caattcgct ttctgttct 
atgcagata gcaccgaat aagaaagat aagaagaaa 
ttgcacgga tcccacgaa caggtctcc gacattgag 
tacatcata ccaaggcca aaatcagcc aaaccccca 
accgtctac aacgcctac tcccaaagt tgggtgttc 
gagtcggac agcgcaagt tgttcaaac accgccgaa 
tcgccctac ttgaaaatc ctcgagaac ggcaccccc 
aaacccaaa tcaaagaaa ctccaaaac ggcgtcgtg 
agcgacacc acccacctc atcgataat cccgtagtg 
cacatcgaa gaggcatcg gacgatagt aacagtaac 
agtgatcgt aaactttgc cacatgcgt agtttctcg 
cgctcggct tcgcctgtg ctctcgggc ggctcctcc 
cgcgttaac ttgcaccaa agcagcacc aatccgccg 
atctacgac tgcttggag agcatctac aggacgcgt 
ctaaacacc ggcccccgg gacgaggag cactaccaa 
gccccccag gccatggtg ctgcggcgg gtggagtcc 
gtgagcccc cacgcggag aaggtccag tacgcctcg 
ctgatgaag gagctgcag cgcgccatc gtcagcaag 
aaggagccg tcggtgacg tcccccagc tccgactcc 
aagagcagc tccaagacc agcagcgac gccgagttc 
tccaaggag ctggaggcg gcgctccag ctgatccag 
gacctggag tcgcccaac accatcgag acgccctcg 
gtgaaggag cggcccctg gctgtgtgg cagaccagc 
ggcagtgag agcgaaaag actctaagt gctgtgggg 
tcgctggcg gagatcgcc tccccggaa ggggcgccc 
acgaacggt aagcccgcc gtccccgac tcccagagc 
acctccggg tacagctcc ccctcccat cccaccccc 
agctggtcc accacctcc tccctcaac ggaagcagc 
accgacatg gcctattcc attcataac gcgcattcc 
ggcacagtc atctccctc tactcccaa gttaacccg 
caatgcaaa ggcaaatca gtaacacta gtcaacata 
aacggtgac cccaccccg attcacgac gctgttagt 
accaaaagt ggggagaaa aacccgggc tggaggtcg 
ctactgagg aagaagaaa cagccgccg aaactgtgc 
ccggagtta gagggggct attattaag tcggagagt 
ttggcgtat ctgtccgag cttgagttg ctagcgagg 
catcagaga aataaagag atacaaagg gaaatcgaa 
gaaagagta atccaacag ctgggtact ccaaggact 
gagtcaaat tgctaa
      mRNA sequence
      • >TC006849 RA
        cagaacgtc ataatcggg attgttggc gggatgttg 
tcctgtttg ggacgctta tcgccccga cgccaggaa 
ttcctcctt tacatggcc gtctcaatc ctgacagtg 
aacagcgtc aacgtcgtc ctgagcgag tgggggctt 
tacttcaca gacatgacg gagctgttg aaaaatcat 
cccaatcac atgctgatt gactacgca tgttttgcc 
acacggatc gccacagcc gccgtcatc ttagtctcc 
cttctcgac agtcaattc gctttctgt tctatgcag 
atagcaccg aataagaaa gataagaag aaattgcac 
ggatcccac gaacaggtc tccgacatt gagtacatc 
ataccaagg ccaaaatca gccaaaccc ccaaccgtc 
tacaacgcc tactcccaa agttgggtg ttcgagtcg 
gacagcgca agttgttca aacaccgcc gaatcgccc 
tacttgaaa atcctcgag aacggcacc cccaaaccc 
aaatcaaag aaactccaa aacggcgtc gtgagcgac 
accacccac ctcatcgat aatcccgta gtgcacatc 
gaagaggca tcggacgat agtaacagt aacagtgat 
cgtaaactt tgccacatg cgtagtttc tcgcgctcg 
gcttcgcct gtgctctcg ggcggctcc tcccgcgtt 
aacttgcac caaagcagc accaatccg ccgatctac 
gactgcttg gagagcatc tacaggacg cgtctaaac 
accggcccc cgggacgag gagcactac caagccccc 
caggccatg gtgctgcgg cgggtggag tccgtgagc 
ccccacgcg gagaaggtc cagtacgcc tcgctgatg 
aaggagctg cagcgcgcc atcgtcagc aagaaggag 
ccgtcggtg acgtccccc agctccgac tccaagagc 
agctccaag accagcagc gacgccgag ttctccaag 
gagctggag gcggcgctc cagctgatc caggacctg 
gagtcgccc aacaccatc gagacgccc tcggtgaag 
gagcggccc ctggctgtg tggcagacc agcggcagt 
gagagcgaa aagactcta agtgctgtg gggtcgctg 
gcggagatc gcctccccg gaaggggcg cccacgaac 
ggtaagccc gccgtcccc gactcccag agcacctcc 
gggtacagc tccccctcc catcccacc cccagctgg 
tccaccacc tcctccctc aacggaagc agcaccgac 
atggcctat tccattcat aacgcgcat tccggcaca 
gtcatctcc ctctactcc caagttaac ccgcaatgc 
aaaggcaaa tcagtaaca ctagtcaac ataaacggt 
gaccccacc ccgattcac gacgctgtt agtaccaaa 
agtggggag aaaaacccg ggctggagg tcgctactg 
aggaagaag aaacagccg ccgaaactg tgcccggag 
ttagagggg gctattatt aagtcggag agtttggcg 
tatctgtcc gagcttgag ttgctagcg aggcatcag 
agaaataaa gagatacaa agggaaatc gaagaaaga 
gtaatccaa cagctgggt actccaagg actgagtca 
aattgctaa aactcaatt agaaagtta gcgaaactt 
aacgttgaa acccctcaa ctctgagct gcaggtcag 
cgacgtcca ttttttcca attctacga tttatattt 
tcgatactt gtacgtaaa aaaacatct ctatgtgta 
catattgtt gttatagtt atatagttt atatcataa 
ttctattgt aaatattac aataaaaag tccctttta 
ta

      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