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Clone: HP03N16

Genotype (Genotype)
  species: Hordeum vulgare
  type: wildtype
  common name: barley
  cultivar: Barke
Library:
  lib name: IPKc 2028
  tissue: epidermis
  stage/tissue: seedlings grown in greenhouse for 6 days
  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.Average insert size is 850 bp

Related with
Hv.23072 unigene cluster
Sbi.12403 unigene cluster
 
Sequence: HP03N16T
submitter of sequence: Dr. Nils Stein
length: 545
priming: 5-prime
GenBankAc: CB877180
IPK CR-EST: HP03N16T
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.
 
HP03N16T
CCCTGAGCAC CCACCCACCC ACACAGCTCC AGCTCCGAAG GAGGAGTGAG GACCATGGCC         60
ACCTCCACCG CCGCCGTGCT GTCCCCGCCC GCCGTGGCCG GGCTCCGCCT AGCGCCGTCC        120
CCGCGCGCGG CGGCCTCGTT CCGGGGGGTC TCACCGCCGG CGCGGCGGTC CGTGGCGGCG        180
CGGGCCGCGC TGGAGCCGTC GGTGGTGATC AGCCTCAGCA CGGGGCTGTC GCTCGTGATG        240
GGCCGCTTCG TCTTCTTCAA CTTCCAGCGG GAGAACGTGG CGAAGCAGGT CCCCGAGCAG        300
AACGGCAAGA CCCACTTCGA GGCCGGCGAC GAGCGCGCCA AGGAGTTCGC CGGGATCCTC        360
AAGTCCAACG ACCCCGTCGG CTTCAACCTC GTCGACGTCC TCGCATGGGG CTCCATCGGC        420
CACATCGTCG CCTACTACAT CCTCGCCACC ACCAGCAACG GATACGACCC TCCCTTCTTC        480
GGCTGATCCG TCCGTCTCCC CTGCCTGCCT GCGTGCCGGC CGGAGCGGCT TTGCTGTTGT        540
AATCC                                                                    545
TypePositionOrientation
ORF 3 - 539: forward
ORF 55 - 483: forward
ORF 425 - 3: reverse
ORF 543 - 154: reverse
ORF 544 - 386: reverse
ORF 545 - 438: reverse
Cluster Info:
Contig40620.1 (29 members)
view Blast Searches
 
Sequence: HP03N16w
submitter of sequence: Dr. Nils Stein
length: 639
priming: 3-prime
GenBankAc: CB879828
IPK CR-EST: HP03N16w
Sequence features and Clone alignments (BLAST):
Click for Menu Click for Menu

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.
 
HP03N16w
GCACTACTTG TCCAGATCAA TCTTTCACCA TCTCACATAC ATACATACAT ACTCATGATG         60
GTACATCATC AGCGTATACA GAACTAATGA AAACACGGCG GATTACAACA GCAAAGCCGC        120
TCCGGCCGGC ACGCAGGCAG GCAGGGGAGA CGGACGGATC AGCCGAAGAA GGGAGGGTCG        180
TATCCGTTGC TGGTGGTGGC GAGGATGTAG TAGGCGACGA TGTGGCCGAT GGAGCCCCAT        240
GCGAGGACGT CGACGAGGTT GAAGCCGACG GGGTCGTTGG ACTTGAGGAT CCCGGCGAAC        300
TCCTTGGCGC GCTCGTCGCC GGCCTCGAAG TGGGTCTTGC CGTTCTGCTC GGGGACCTGC        360
TTCGCCACGT TCTCCCGCTG GAAGTTGAAG AAGACGAAGC GGCCCATCAC GAGCGACAGC        420
CCCGTGCTGA GGCTGATCAC CACCGACGGC TCCAGCGCGG CCCGCGCCGC CACGGACCGC        480
CGCGCCGGCG GTGAGACCCC CCGGAACGAG GCCGCCGCGC GCGGGGACGG CGCTAGGCGG        540
AGCCCGGCCA CGGCGGGCGG NGACAGCACG GCGGCGGTGG AGGTGGCCAT GGTCCTCACT        600
CCTCCTTCGG AGCTGGAGCT GTGTGGGTGG GTGGGTGCT                               639
TypePositionOrientation
ORF 1 - 84: forward
ORF 3 - 491: forward
ORF 220 - 639: forward
ORF 638 - 162: reverse
ORF 639 - 106: reverse
Cluster Info:
Contig40620.1 (29 members)
view Blast Searches
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