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Clone: HY01K11

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_Os01g64090.1 annotated gene (TIGR5)
LOC_Os01g64090.2 annotated gene (TIGR5)
LOC_Os02g21660.1 annotated gene (TIGR5)
LOC_Os02g21660.2 annotated gene (TIGR5)
LOC_Os08g44380.2 annotated gene (TIGR5)
LOC_Os08g44450.2 annotated gene (TIGR5)
LOC_Os08g44380.3 annotated gene (TIGR5)
LOC_Os08g44380.1 annotated gene (TIGR5)
LOC_Os08g44450.1 annotated gene (TIGR5)
LOC_Os08g44450.3 annotated gene (TIGR5)
Can.1546 unigene cluster
Ppa.3640 unigene cluster
Ppa.5371 unigene cluster
Ppa.3917 unigene cluster
Hv.22922 unigene cluster
Os.8864 unigene cluster
Os.11487 unigene cluster
Zm.138249 unigene cluster
Sof.5084 unigene cluster
Sbi.19782 unigene cluster
Bra.636 unigene cluster
Bra.1910 unigene cluster
Sbi.837 unigene cluster
Zm.66965 unigene cluster
Hv.12839 unigene cluster
Bol.1747 unigene cluster
Zm.94920 unigene cluster
Hv.5459 unigene cluster
Bol.5797 unigene cluster
Sof.20573 unigene cluster
At.24240 unigene cluster
Os.37672 unigene cluster
Bra.1732 unigene cluster
Tcc.1562 unigene cluster
Vvi.9214 unigene cluster
Les.19407 unigene cluster
Can.3824 unigene cluster
Bol.3778 unigene cluster
Bna.4011 unigene cluster
Pth.5660 unigene cluster
Ptp.5768 unigene cluster
At.19006 unigene cluster
Nta.6843 unigene cluster
Bna.575 unigene cluster
Tcc.7897 unigene cluster
Nta.1653 unigene cluster
Stu.2362 unigene cluster
Les.19882 unigene cluster
Ccl.2011 unigene cluster
Csi.5735 unigene cluster
Can.679 unigene cluster
Pth.17313 unigene cluster
Ghi.5769 unigene cluster
Ptp.11065 unigene cluster
Psi.8134 unigene cluster
Les.3112 unigene cluster
Lja.541 unigene cluster
Bna.15209 unigene cluster
Pgl.4932 unigene cluster
Ghi.18764 unigene cluster
Bra.28765 unigene cluster
At.7367 unigene cluster
Gma.6491 unigene cluster
Pta.7598 unigene cluster
Pta.24201 unigene cluster
Lja.14656 unigene cluster
Ppe.20380 unigene cluster
Mtr.2748 unigene cluster
Lsa.5490 unigene cluster
Ppe.5428 unigene cluster
Les.23394 unigene cluster
Gma.37744 unigene cluster
Ghi.4846 unigene cluster
Psi.6078 unigene cluster
Pgl.14502 unigene cluster
Pta.2091 unigene cluster
Lsa.11335 unigene cluster
Lsa.14576 unigene cluster
Han.4573 unigene cluster
Han.1824 unigene cluster
LOC_Os01g64090.1 annotated gene (MSU 6.1)
LOC_Os02g21660.1 annotated gene (MSU 6.1)
LOC_Os02g21660.2 annotated gene (MSU 6.1)
LOC_Os08g44380.2 annotated gene (MSU 6.1)
LOC_Os08g44450.2 annotated gene (MSU 6.1)
LOC_Os08g44380.1 annotated gene (MSU 6.1)
LOC_Os08g44450.1 annotated gene (MSU 6.1)
LOC_Os08g44450.3 annotated gene (MSU 6.1)
 
Sequence: HY01K11T
submitter of sequence: Dr. Wolfgang Michalek
length: 700
priming: 5-prime
EBI-Id: HVUL06882
GenBankAc: AL506040
IPK CR-EST: HY01K11T
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.
 
HY01K11T
CGATGCCCTN AGGGAGGCTA TCACAAACAT TACCAATGAC TGCCGTGAGA AGAACCGCAA         60
GTTCGTTGAA ACCATTGAGC TGCAGATTGG TCTGAAGAAC TATGACCCGC AAAAGGACAA        120
ACGTTTCAGT GGCTCTGTTA AGCTTCCTCA CATCCCTCGC CCAAAGATGA GGGTTTGCAT        180
GCTTGGTGAT GCCCAGCATG TTGAAGAGGC AGGGAAAATG GGCCTTGACT GTATGGATGT        240
GGAATCGCTG AAGAAGATGA ACAAAAACAA GAAGCTAGTC AAGAAGCTTG CAAAGAAGTA        300
TCATGCTTTC CTTGCATCTG AGGCTATCAT TAAGCAGATT CCCCGACTTC TTGGACCTGG        360
TCTTAACAAG GCAGGAAAGT TTCCAACTTT GGTGTCTCAC CAGGAGTCCC TTGAGTCCAA        420
GGTTAATGAG ACCAAGGCCA CTGTCAAGTT CCAGTTGAAA AAGGTGCTTT GCATGGGTGT        480
TGCCGTTGGC CACCTGGGTA TGGAGGAGAA GCAGATCTTC CAGAACGTGC AGATGAGCCG        540
TGAACTTCCT TGTCTCTCTG TTGAAGAAGA ATTGGCAAAA CGTGCGGTGC CTGTACCTGA        600
AGAGCACAAT GGGAAAGGTG TACCGGTTGT TCTAGACTCT AGTCTTCTAG GATTTCAGGA        660
GATTGACAAC TTGGGAACTT TTGTTGCTTT CTCAATTATC                              700
TypePositionOrientation
ORF 3 - 92: forward
ORF 75 - 1: reverse
ORF 102 - 167: forward
ORF 167 - 700: forward
ORF 199 - 2: reverse
ORF 303 - 455: forward
ORF 474 - 400: reverse
Cluster Info:
Contig155.1 (81 members)
view Blast Searches
 
Sequence: HY01K11u
submitter of sequence: Dr. Wolfgang Michalek
length: 640
priming: 3-prime
EBI-Id: HVUL10228
GenBankAc: AL509386
IPK CR-EST: HY01K11u
Sequence features and Clone alignments (BLAST):
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.
 
HY01K11u
TTTTTTTTTT TTTTTTTTTA AAATGTCATG AAGTTCCAGA CAATAGAACA AACCATCTCA         60
GTACAAGACA ATAATTGTCA CTCGACGCGC ACGAAAATTT GATAATTGAG AAAGCAACAA        120
AAGTTCCCAA GTTGTCAATC TCCTGGAAAT CCTAGAAGAC TAGAGTCTAG AACAACCGGT        180
ACACCTTTCC CATTGTGCTC TTCAGGTACA GGCACCGCAC GTTTTGCCAA TTCTTCTTCA        240
ACAGAGAGAC AAGGAAGTTC ACGCTCATCT GCACGTTCTG GAAGATCTGC TTCTCCTCCA        300
TACCCAGGTG GCCAACGGCA ACACCCATGC AAAGCACCTT TTTCAACTGG AACTTGACAG        360
TGGCCTTGGT CTCATTAACC TTGGACTCAA GGGACTCCTG GTGAGACACC AAAGTTGGAA        420
ACTTTCCTGC CTTGTTAAGA CCAGGTCCAA GAAGTCGGGG AATCTGCTTA ATGATAAGCC        480
TCAGATGCAA GGAAAGCATG ATACTTCTTT GCAAGCTTCT TGACTAAGCT TCTTGTTTTT        540
GTTCATCTTC CTCAAGCGGA TTCCACATCC AATACAGTCA AAGGNCCATT TTCCCTGGCC        600
TCTTCAACAT GCCNGGGCAT CACCAAGCAT GCAAACCCTC                              640
TypePositionOrientation
ORF 3 - 71: forward
ORF 28 - 99: forward
ORF 327 - 401: forward
ORF 499 - 170: reverse
ORF 546 - 484: reverse
ORF 638 - 555: reverse
Cluster Info:
Contig155.1 (81 members)
view Blast Searches
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