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Clone: HM05M13

Genotype (Genotype)
  species: Hordeum vulgare
  type: wildtype
  common name: barley
  cultivar: Barke
Library:
  lib name: IPKc 2026
  tissue: male inflorescences
  stage/tissue: male inflorescences (approx. 2 mm in size), green anther stage
  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.

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LOC_Os01g55830.1 annotated gene (MSU 6.1)
 
Sequence: HM05M13r
submitter of sequence: Dr. Nils Stein
length: 596
priming: 5-prime
GenBankAc: BU994112
IPK CR-EST: HM05M13r
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.
 
HM05M13r
GAGAGAAGAG ATAGAAAAAA AAGGTTCGAG GGCGTTGCGG AGTGAGAAGA GACGAGATGG         60
CTCCGGTGAA GCTGTACGGC GCGACCCTGT CGTGGAACGT CACCAGGTGC GTGGCGGCGC        120
TGGAGGAGGC CGGCGTCGAG TACGAGCTCG TCCCCATCAA CTTCAGCACC GGCGAGCACA        180
AGAGCCCCGA CCACCTCGCC AGGAACCCCT TTGGGCAGGT GCCAGCTTTG CAGGATGGTG        240
ACTTGTATGT CTTCGAATCA CGTGCTATTT GCAAGTATGC GTGCCGCAAG AACAAGCCAG        300
AGCTGTTGAA GGAGGGCGAC ATCAAGGAGT CAGCAATGGT GGATGTGTGG CTCGAGGTGG        360
AGGCCCATCA GTACACCGCC GCTCTGAGCC CCATTCTCTT CGAGTGCCTT ATCCATCCTA        420
TGCTTGGGGG AGCCACTGAC CAGAAGGTCA TCGACGACAA CCTTGTTAAG ATCAAGAACG        480
TGCTGGCGGT GTACGAGGCG CGGCTCACCA AGTCCAAGTA CCTGGCTGGA GACTTCCTCA        540
GCCTTGCGGA CCTTAACCAT GCGTCTGTCA CCCTGTGCTT GGCGGCCACA CCCTAT            596
TypePositionOrientation
ORF 2 - 238: forward
ORF 57 - 596: forward
ORF 235 - 306: forward
ORF 322 - 2: reverse
ORF 451 - 371: reverse
ORF 596 - 333: reverse
Cluster Info:
Contig168.1 (88 members)
view Blast Searches
 
Sequence: HM05M13w
submitter of sequence: Dr. Nils Stein
length: 353
priming: 3-prime
GenBankAc: CB880193
IPK CR-EST: HM05M13w 
HM05M13w
GGAGGGAAAT CGACCTCTTA GTTCATCCAT CCTCATGTAC AAATCAAAGA AACCCTCGTG         60
CCGAATTCCT GCAGCCCGGG GGATCCACTA GTTCTAGAGC GGCCGCCACC GCGGTGGAGC        120
TCCAGCTTTT GTTCCCTTTA GTGAGGGTTA ATTGCGCGCT TGGCGTAATC ATGGTCATAG        180
CTGTTTCCTG TGTGAAATTG TTATCCGCTC ACAATTCCAC ACAACATACG AGCCGGAAGC        240
ATAAAGTGTA AAGCCTGGGG TGCCTAATGA GTGAGCTAAC TCACATTAAT TGCGTTGCGC        300
TCACTGCCCG CTTTCCAGTC GGGAAACCTG TCGTGCCAGC TGCATTAATG AAT               353
TypePositionOrientation
ORF 2 - 88: forward
ORF 3 - 248: forward
ORF 178 - 47: reverse
ORF 267 - 353: forward
ORF 352 - 284: reverse
view Blast Searches
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