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Clone: HS04C07

Genotype (Genotype)
  species: Hordeum vulgare
  type: wildtype
  common name: barley
  cultivar: Barke
Library:
  lib name: IPKc 2030
  tissue: embryo + scutellum
  stage/tissue: 0-16 hours after imbibition
  cloning vector: pBluescript SK+ site_1: EcoRI (5'-end of cDNA); site_2: XhoI (3'-end of cDNA)
  host: XL10-Gold
  antibiotic: Ampicillin
  library description:
  Due to a cloning artefact caused by the kit, in most cases the EcoRI site is NOT present, as well as the EcoRIadapter used for cloning. To excise the insert, restriction sites upstream EcoRI should be used (e.g. BamHI, SalI,PstI). NOTE: Also due to the cloning system used Blue/white selection for recombinats is not 100% reliable.

Related with
LOC_Os03g15590.1 annotated gene (TIGR5)
Pth.5602 unigene cluster
Mtr.2251 unigene cluster
Ghi.12746 unigene cluster
Hv.2956 unigene cluster
Os.22416 unigene cluster
Sbi.6305 unigene cluster
Zm.2999 unigene cluster
Sof.18024 unigene cluster
LOC_Os03g15590.1 annotated gene (MSU 6.1)
GBR1885 Marker
 
Sequence: HS04C07r
submitter of sequence: Dr. Nils Stein
length: 558
priming: 5-prime
GenBankAc: BQ467551
IPK CR-EST: HS04C07r
Sequence features and Clone alignments (BLAST):
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Gene structure   UTR    start codon    stop codon    exon-exon border 
Clone alignments   forward    reverse    start    stop 
Protein domains   domain       
Click on sequence features to obtain additional information.
 
HS04C07r
CGGCACGAGG CTCTCTCTCT CTGAACTCCC AACCCAGCCG ACCAAATCGC CGCACGAGGG         60
GGCGCCATGG AGGCGGCGGT GGAGAGGAAG GTGCCCGAGC AGGAGGAGCA GCTACAGCCG        120
TCGCACGCCC GGGCCGAGGA CGCGCCGCCC GCCGCCGTCG AGGAGGAGGA CGAGGCGGAG        180
GCCGAGGAGA GCGAGCGCCG CAACCGCGAG CTCAAGGCCG GCCTCCATCC TCTCAGGCGC        240
AAGCTCGTGC TCTGGTACAC ACGCCGGACG CCCGGGACGA GGTCGCAGTC GTACGAGGAC        300
AACATCAAGA AGATCGTCGA TTTCAGCACT GTCGAGTCGT TCTGGGTTTG CTACTGCCAC        360
CTCGCACGCC CGTCCGCCCT ACCGAGCCCC ACGGACCTGC ATCTTTTCAA AGAGGGTGTC        420
CGTCCACTCT GGGAGGATCC TGCAAATCGG AATGGCGGCA AGTGGATTAT ACGGTTCAAG        480
AAGGCTGTTT CTGGGCGTTT CTGGGAGGAT TTGGTGCTGG TTCTAGTGGG TGACCAACTT        540
GATTATAGTG ATGATGTT                                                      558
TypePositionOrientation
ORF 2 - 523: forward
ORF 3 - 530: forward
ORF 67 - 558: forward
ORF 228 - 115: reverse
ORF 305 - 3: reverse
ORF 556 - 479: reverse
Cluster Info:
Contig2204.1 (5 members)
Representative for Uniset
view Blast Searches
 
Sequence: HS04C07u
submitter of sequence: Dr. Nils Stein
length: 501
priming: 3-prime
GenBankAc: BQ662777
IPK CR-EST: HS04C07u 
HS04C07u
CCGGGCGAAT ATCATAAAAG TCAATACTTA GGCATTTGAA ATTCTGTAGA GTACATGGTA         60
GCATGACAAA GAGTAATCAT ACATCATGGC TGGGTTGAAA CTTCAGAACC GAAAATCCAC        120
AAGGATTAAG TTCACGAGAA GGGCCATGAC TAGCCTTGAC AACATGGAGG TTAACCTCTC        180
AGCCATGTGT TCCTGTAGGA CGAGTTGTCT CGCAGCGAGG CATCATGTGG TTTGTACTCC        240
ATCAGATAGG TGTGCGGCAG CTTCAAGTGC CTCTTAATTG AGTCTCTTAA TGTCATCACA        300
GCCTGGTGGT CTGATGCATT CCGATTCCAG ACACTCAGGA TGTCTTCATT GAAACGACAA        360
CTTAGCACAA TGCCACAAAC ATCATCACTA TAATCAAGTT GGTCACCCAC TAGAACCAGC        420
ACCAAATCCT CCCAGAAACG CCCAGAAACA GCCTTCTTGA ACCGTATAAT CCACTTGCCG        480
CCATTCCGAT TTGCAGGATC C                                                  501
TypePositionOrientation
ORF 64 - 2: reverse
ORF 86 - 274: forward
ORF 186 - 106: reverse
ORF 499 - 413: reverse
ORF 500 - 174: reverse
ORF 501 - 406: reverse
Cluster Info:
Contig2204.2 (11 members)
view Blast Searches
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