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Clone: HF08F03

Genotype (Genotype)
  species: Hordeum vulgare
  type: wildtype
  common name: barley
  cultivar: Barke
Library:
  lib name: IPKc 2022
  tissue: caryopsis
  stage/tissue: developing caryopsis, 16-25 DAF (days after flowering)
  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:
  developing caryopsis, 16-25 DAF(days after flowing) 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 940 bp

Related with
LOC_Os09g39400.2 annotated gene (TIGR5)
LOC_Os09g39400.1 annotated gene (TIGR5)
Hv.8009 unigene cluster
Hv.23678 unigene cluster
Os.4702 unigene cluster
Hv.13426 unigene cluster
LOC_Os09g39400.2 annotated gene (MSU 6.1)
LOC_Os09g39400.1 annotated gene (MSU 6.1)
 
Sequence: HF08F03r
submitter of sequence: Dr. Nils Stein
length: 511
priming: 5-prime
GenBankAc: BU985687
IPK CR-EST: HF08F03r
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.
 
HF08F03r
CGGCACGAGG CTTCATCGAA GACGCCGACC GGATCATCGC CGACATCGCC GCCCTGCTGG         60
ACCAGCCCGC CGTGGACTTC GACAAGGTGG ACGCGCACGT GCACCAGCTC AAGGGGAGCA        120
GCTCCAGTGT TGGCGCTCAG AAAGTGAAGC TCGCCTGCAT GCACTTCCGC CAGTTCTATG        180
AGGCAAAAAG TAAAGATGGG TGCCTCATGG CGTTGGCCCT TGTTAGGAGT GAGTTCTGTG        240
ATGTGCGCAG CAAGTTCCAG ACCATGATGC AGCTGGGGCA GCAGATCGAG GCCTGCAGTC        300
CCAAGTAGAG TAGCAGTAAA AACTGAAGCA GAAGGAGCTT AGCTCCATGT GACCCCTGAC        360
ATGATGGTGG GGGGGCAGTG TGTATGTATC CCTTAAACTT GTTTGTAGGC AGTGTAACGG        420
CTGTGTGTGT GCAGAACCGG ATTGACCGAT TCCAGCGGTG GAACTCCGGG CTCGCGACCC        480
CTTGAAACGG AACTTTTTTG CCCTGTGTTG G                                       511
TypePositionOrientation
ORF 1 - 144: forward
ORF 2 - 178: forward
ORF 3 - 305: forward
ORF 178 - 264: forward
ORF 384 - 482: forward
ORF 509 - 396: reverse
ORF 510 - 226: reverse
ORF 511 - 179: reverse
Cluster Info:
Contig3529.1 (9 members)
view Blast Searches
 
Sequence: RUS62G05w
submitter of sequence: Dr. Nese Sreenivasulu
length: 451
priming: 3-prime
GenBankAc: FD523387
IPK CR-EST: RUS62G05w 
RUS62G05w
AAAAAAGTTC CGTTTCAAGG GGTCGCGAGC CCGGAGTTCC ACCGCTGGAA TCGGTCAATC         60
CGGTTCTGCA CACACACAGC CGTTACACTG CCTACAAACA AGTTTAAGGG ATACATACAC        120
ACTGCCCCCC CACCATCATG TCAGGGGTCA CATGGAGCTA AGCTCCTTCT GCTTCAGTTT        180
TTACTGCTAC TCTACTTGGG ACTGCAGGCC TCGATCTGCT GCCCCAGCTG CATCATGGTC        240
TGGAACTTGC TGCGCACATC ACAAAACTCA CTCCTAACAA GGGCCAACGC CATGAGGCAC        300
CCATCTTTAC TTTTTGCCTC ATAAAACTGG CGGAAGTGCA TGCAGGCGAG CTTCACTTTC        360
TGAGCGCCAA CACTGGAGCT GCTCCCCTTG AGCTGGTGCA CGTGCGCGTC CACCTTGTCG        420
AAGTCCACGG CGGGCTGGTC CAGCAGGGCG G                                       451
TypePositionOrientation
ORF 1 - 321: forward
ORF 2 - 274: forward
ORF 3 - 104: forward
ORF 116 - 18: reverse
ORF 322 - 236: reverse
ORF 449 - 195: reverse
ORF 450 - 322: reverse
ORF 451 - 356: reverse
Cluster Info:
Contig3529.1 (9 members)
view Blast Searches
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