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Clone: HY09J22

Genotype (Genotype)
  species: Hordeum vulgare
  type: wildtype
  common name: barley
  cultivar: Barke
Library:
  lib name: IPK_c2001
  tissue: developing caryopsis
  stage/tissue: developing caryopsis (3.-15.DAP)
  cloning vector: pBK-CMV site_1: EcoRI; site_2: XhoI
  host: XLOLR
  antibiotic: Kanamycin
  library description:
  mRNA was made from developing caryopsis (3.-15.DAP) of spring barley variety 'Barke', a high quality malting variety. Cloning sites: EcoRI (5'-end of cDNA) and XhoI (3'-end of cDNA). NOTE: Due to a cloning artefact caused by the kit, in most cases the EcoRI site is NOT present, as well as the EcoRI adapter. Average insert size is 1 kb Sequence trimming: Vector sequences and sequence ends were trimmed from the 5'-and 3'-end until a 50 bp window contains less than two ambiguities. The maximum length was set to 700bp

Related with
LOC_Os01g55830.2 annotated gene (TIGR5)
LOC_Os01g55830.1 annotated gene (TIGR5)
Hv.3134 unigene cluster
Hv.932 unigene cluster
Zm.81924 unigene cluster
Os.97997 unigene cluster
Sbi.17905 unigene cluster
Sof.17942 unigene cluster
Sbi.17875 unigene cluster
LOC_Os01g55830.1 annotated gene (MSU 6.1)
GBR1410 Marker
 
Sequence: HY09J22u
submitter of sequence: Dr. Wolfgang Michalek
length: 406
priming: 3-prime
EBI-Id: HVUL12734
GenBankAc: AL511892
IPK CR-EST: HY09J22u 
HY09J22u
TTTTTTTTTT TTTTTTTTAT CTGGGCACAA TTTATTATCA AACCAGAGCA CGGGAATGCT         60
CATTTAAGTA CAAGATTCGA CAGGATCGCA AGCACAAGCC TGAACATTCA ACACCAGGAC        120
ACATCACAAG AACACACACT AGGAAAGGCA CACATCGGGG GTGACACACC TCGGCTTATT        180
TCGACGAACA AGCCCCAGAA ACTAAGATCA TGGCTTCATC AGCGCAGCGA CCTTCTGGAC        240
GGACGGCCTC GTCAGCAGGT CAGTCCACCA GGCCTTCACA TGCGGGTAAG CGTCAAACAG        300
AGATGCATAG GGTGTGGCCG CCAAGCACAG GGTGACAGAC GCATGGTTAA GGTCCCGCAA        360
GGCTGAGGAA GTCTCCAGCC AGGTACTTGG NCTTGGTGAG CCGCGC                       406
TypePositionOrientation
ORF 1 - 363: forward
ORF 2 - 64: forward
ORF 3 - 161: forward
ORF 63 - 1: reverse
ORF 124 - 41: reverse
ORF 210 - 332: forward
ORF 404 - 279: reverse
ORF 405 - 211: reverse
Cluster Info:
Contig168.1 (88 members)
view Blast Searches
 
Sequence: HY09J22V
submitter of sequence: Dr. Wolfgang Michalek
length: 496
priming: 5-prime
EBI-Id: HVUL09568
GenBankAc: AL508726
IPK CR-EST: HY09J22V
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.
 
HY09J22V
GCACNAGAGA AGAGATAGAA AAAAAAAGGT TCGAGGGCGT TGCGGAGTGA GAAGAGACGA         60
GATGGCTCCG GTGAAGCTGT ACGGCGCGAC CCTGTCGTGG AACGTCACCA GGTGCGTGGC        120
GGCGCTGGAG GAGGCCGGCG TCGAGTACGA GCTCGTCCCC ATCAACTTCA GCACCGGCGA        180
GCACAAGAGC CCCGACCACC TCGCCAGGAA CCCCTTTGGG CAGGTGCCAG CTTTGCAGGA        240
TGGTGACTTG TATGTCTTCG AATCACGTGC TATTTGCAAG TATGCGTGCC GCAAGAACAA        300
GCCAGAGCTG TTGAAGGAGG GCGACATCAA GGAGTCAGCA ATGGTGGATG TGTGGCTCGA        360
GGTGGAGGCC CATCAGTACA CCGCCGCTCT GAGCCCCATT CTCTTCGAGT GCCTTATCCA        420
TCCTATGCTT GGGGGAGCCA CTGACCAGAA GGTCATCGAC GACAACCTTG TTAAGATCAA        480
GAACGTGCTG GCGGTG                                                        496
TypePositionOrientation
ORF 62 - 496: forward
ORF 240 - 311: forward
ORF 327 - 1: reverse
ORF 495 - 376: reverse
ORF 496 - 338: reverse
Cluster Info:
Contig168.1 (88 members)
view Blast Searches
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