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Clone: HD08F09

Genotype (Genotype)
  species: Hordeum vulgare
  type: wildtype
  common name: barley
  cultivar: Golden Promise
Library:
  lib name: IPKc 2020
  tissue: callus
  stage/tissue: callus (5-10 mm in diameter)
  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.Average insert size is 1 kb

Related with
LOC_Os01g55830.1 annotated gene (TIGR5)
Hv.932 unigene cluster
Hv.3134 unigene cluster
Zm.81924 unigene cluster
Os.97997 unigene cluster
Zm.9 unigene cluster
Sbi.17905 unigene cluster
Sof.20462 unigene cluster
Sbi.14146 unigene cluster
Sbi.18265 unigene cluster
Sbi.17875 unigene cluster
LOC_Os01g55830.1 annotated gene (MSU 6.1)
 
Sequence: HD08F09r
submitter of sequence: Dr. Nils Stein
length: 650
priming: 5-prime
GenBankAc: BU991926
IPK CR-EST: HD08F09r
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.
 
HD08F09r
CGGCACGAGG CACAAGAAGC CCCGACCACC TCGCCAGGAA CCCCTTTGGG CAGGTGCCAG         60
CTTTGCAGGA TGGTGACTTG TACGTCTTCG AATCACGTGC TATTTGCAAG TATGCGTGCC        120
GCAAGAACAA GCCAGAGCTG TTGAAGGAGG GTGACATCAA GGAGTCAGCA ATGGTGGATG        180
TGTGGCTCGA GGTGGAGGCC CATCAGTACA CCGCCGCTCT GAGCCCCATT CTCTTCGAGT        240
GCCTTATCCA TCCTATGCTT GGGGGAGCCA CTGACCAGAA GGTCATCGAC GACAACCTTG        300
TTAAGATCAA GAATGTGCTG GCGGTGTACG AGGCGCGGCT CACCAAGTCC AAGTACCTGG        360
CTGGAGACTT CCTCAGCCTT GCGGACCTTA ACCATGCGTC TGTCACCCTG TGCTTGGCGG        420
CCACACCCTA TGCATCTCTG TTCGACGCTT ACCCGCATGT GAAGGCCTGG TGGACTGACC        480
TGCTGACGAG GCCGTCCGTC CAGAAGGTCG CTGCGCTGAT GAAGCCATGA TCTTAGTTTC        540
TGGGGCTTGT TCGTCGAAAT AAGCCGAGGT GTGTCACCCC CGATGTGTGC CTTTCCTAGT        600
GTGTGTTCTT GTGATGTGTC CTGGTGTTGA ATGTTCAGGC TTGTGCTTGC                   650
TypePositionOrientation
ORF 1 - 141: forward
ORF 2 - 73: forward
ORF 3 - 527: forward
ORF 157 - 2: reverse
ORF 286 - 206: reverse
ORF 313 - 459: forward
ORF 528 - 406: reverse
ORF 648 - 577: reverse
ORF 650 - 168: reverse
Cluster Info:
Contig168.1 (88 members)
view Blast Searches
 
Sequence: HD08F09w
submitter of sequence: Dr. Nils Stein
length: 517
priming: 3-prime
GenBankAc: CB865070
IPK CR-EST: HD08F09w
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.
 
HD08F09w
GGGGCACAAT TTATTATCAA ACCAGAGCAC GGGAATGCTC ATTTAAGTAC AAGATTCGAC         60
AGGATCGCAA GCACAAGCCT GAACATTCAA CACCAGGACA CATCACAAGA ACACACACTA        120
GGAAAGGCAC ACATCGGGGG TGACACACCT CGGCTTATTT CGACGAACAA GCCCCAGAAA        180
CTAAGATCAT GGCTTCATCA GCGCAGCGAC CTTCTGGACG GACGGCCTCG TCAGCAGGTC        240
AGTCCACCAG GCCTTCACAT GCGGGTAAGC GTCGAACAGA GATGCATAGG GTGTGGCCGC        300
CAAGCACAGG GTGACAGACG CATGGTTAAG GTCCGCAAGG CTGAGGAAGT CTCCAGCCAG        360
GTACTTGGAC TTGGTGAGCC GCGCCTCGTA CACCGCCAGC ACATTCTTGA TCTTAACAAG        420
GTTGTCGTCG ATGACCTTCT GGTCAGTGGC TCCCCCAAGC ATAGGATGGA TAAGGCACTC        480
GAAGAGAATG GGGCTCACAG CGGCGGTGTA CTGATGG                                 517
TypePositionOrientation
ORF 3 - 140: forward
ORF 103 - 20: reverse
ORF 189 - 311: forward
ORF 259 - 516: forward
ORF 404 - 258: reverse
ORF 431 - 511: forward
ORF 516 - 190: reverse
ORF 517 - 446: reverse
Cluster Info:
Contig168.1 (88 members)
view Blast Searches
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