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Clone: HA03A23

Genotype (Genotype)
  species: Hordeum vulgare
  type: wildtype
  common name: barley
  cultivar: Barke
Library:
  lib name: IPKc 2018
  tissue: embryosac
  stage/tissue: 0-7 DAP (days after pollination)
  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:
  0-7 DAP(days after pollination) 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 1 kb

Related with
Hv.9783 unigene cluster
Zm.103882 unigene cluster
 
Sequence: HA03A23r
submitter of sequence: Dr. Nils Stein
length: 312
priming: 5-prime
GenBankAc: BU976052
IPK CR-EST: HA03A23r
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.
 
HA03A23r
CGGCACGAGG GGACGCCGCC ACCGTGATGG CGCGGGACGA GCGGGACCCG GGCGCGCGCG         60
ACGGGATGGA GGCGTGCGGG ATCCTCTACG GGGCCACCTC CGTGCCGGCG CTGCAGTTCA        120
TGCGCGGCTA CGCGGCGGCG AGGGCGTGGG ACCGGGCGCG CTCGCTGCTC TCGCTCACGG        180
GGCAGGCCGG GATCGGCTGC GAGGCGGAGC TCGCCGGCGC GCCGGCGGCC AAGGGGAGGA        240
TGGCCGCCGC CAACCGCGAG TTCGACCAGG TCACCACCAT GGCCACGGCG CTGCTCAACA        300
AGGTCGATCA TC                                                            312
TypePositionOrientation
ORF 27 - 311: forward
ORF 280 - 131: reverse
ORF 311 - 3: reverse
Cluster Info:
Contig8623.1 (5 members)
Representative for Uniset
view Blast Searches
 
Sequence: HA03A23u
submitter of sequence: Dr. Nils Stein
length: 348
priming: 3-prime
GenBankAc: BU976053
IPK CR-EST: HA03A23u 
HA03A23u
GGAGGGAGTA ATCATAATCC AAATTTTACA TGCGCGATTA CTACAGTAGT TTGCTGAAGG         60
AATTAATAAT CAACATGCGC CCTTACTATA GTTTGCTCAA GGAACTACTC CAATAATCAA        120
CACAAGGGCT CTGGTTATTA ACACAGGAAC TCTGATGGCA TGTCACCACG TCACCCGAGA        180
TGATCGACCT TGTTGAGCAG CGCCGTGGCC ATGGTGGTGA GCTGGTCGAA CTCGCGGTTG        240
GCGGCGGCCA TCCTCCCCTT GGCCGCCGGC GCGCCGGCGA GCGCCGCCTC GCAGCCGATC        300
CCGGCCTGCC CCGTGAGCGA GAGCATTGAG CGCGCCCGGT CCCACGCC                     348
TypePositionOrientation
ORF 30 - 113: forward
ORF 180 - 326: forward
ORF 211 - 348: forward
ORF 346 - 89: reverse
ORF 347 - 174: reverse
ORF 348 - 166: reverse
Cluster Info:
Contig8623.1 (5 members)
view Blast Searches
 
Sequence: RUS03E09w
submitter of sequence: Dr. Nese Sreenivasulu
length: 430
priming: 3-prime
GenBankAc: FD521630
IPK CR-EST: RUS03E09w 
RUS03E09w
ACATGCGCGA TTACTACAGT AGTTTGCTGA AGGAATTAAT AATCAACATG CGCCCTTACT         60
ATAGTTTGCT CAAGGAACTA CTCCAATAAT CAACACAAGG GCTCTGGTTA TTAACACAGG        120
AACTCTGATG GCATGTCACC ACGTCACCCG AGATGATCGA CCTTGTTGAG CAGCGCCGTG        180
GCCATGGTGG TGAGCTGGTC GAACTCGCGG TTGGCGGCGG CCATCCTCCC CTTGGCCGCC        240
GGCGCGCCGG CGAGCGCCGC CTCGCAGCCG ATCCCGGCCT GCCCCGTGAG CGAGAGCAGC        300
GAGCGCGCCC GGTCCCACGC CCTCGCCGCC GCGTAGCCGC GCATGAACTG CAGCGCCGGC        360
ACGGAGGTGG CCCCGTAGAG GATCCCGCAC GCCTCCATCC CGTCGCGCGC GCCCGGGTCC        420
CGCTCGTCCC                                                               430
TypePositionOrientation
ORF 3 - 86: forward
ORF 153 - 428: forward
ORF 184 - 333: forward
ORF 428 - 147: reverse
ORF 429 - 139: reverse
ORF 430 - 62: reverse
Cluster Info:
Contig8623.1 (5 members)
view Blast Searches
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