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Clone: HI08J17

Genotype (Genotype)
  species: Hordeum vulgare
  type: wildtype
  common name: barley
  cultivar: Barke
Library:
  lib name: IPKc 2025
  tissue: female inflorescences
  stage/tissue: female inflorescences (approx. 3 mm in size)
  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.

Related with
LOC_Os01g55830.1 annotated gene (TIGR5)
LOC_Os01g55830.2 annotated gene (TIGR5)
Hv.932 unigene cluster
Hv.3134 unigene cluster
Zm.81924 unigene cluster
Os.97997 unigene cluster
Sbi.17905 unigene cluster
Zm.9 unigene cluster
Sof.20462 unigene cluster
Sbi.17875 unigene cluster
Sbi.14146 unigene cluster
Sbi.18265 unigene cluster
LOC_Os01g55830.1 annotated gene (MSU 6.1)
 
Sequence: HI08J17r
submitter of sequence: Dr. Nils Stein
length: 641
priming: 5-prime
GenBankAc: BU997650
IPK CR-EST: HI08J17r
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.
 
HI08J17r
AAAAGGTTCG AGGGCGTTGC GGAGTGAGAA GAGACGAGAT GGCTCCGGTG AAGCTGTACG         60
GCGCGACCCT GTCGTGGAAC GTACCAGGTG CGTGGCGGCG CTGGAGGAGG CCGGCGTCGA        120
GTACGAGCTC GTCCCCATCA ACTTCAGCAC CGGCGAGCAC AAGAGCCCCG ACCACCTCGC        180
CAGGAACCCC TTTGGGCAGG TGCCAGCTTT GCAGGATGGT GACTTGTATG TCTTCGAATC        240
ACGTGCTATT TGCAAGTATG CGTGCCGCAA GAACAAGCCA GAGCTGTTGA AGGAGGGCGA        300
CATCAAGGAG TCAGCAATGG TGGATGTGTG GCTCGAGGTG GAGGCCCATC AGTACACCGC        360
CGCTCTGAGC CCCATTCTCT TCGAGTGCCT TATCCATCCT ATGCTTGGGG GAGCCACTGA        420
CCAGAAGGTC ATCGACGACA ACCTTGTTAA GATCAAGAAC GTGCTGGCGG TGTACGAGGC        480
GCGGCTCACC AAGTCCAAGT ACCTGGCTGG AGACTTCCTC AGCCTTGCGG ACCTTAACCA        540
TGCGTCTGTC ACCCTGTGCT TGGCGGCCAC ACCCTATGCA TCTCTGTTTG ACGCTTACCC        600
GCATGTGAAG GCCTGGTGGA CTGACCTGCT GACGAGGCCG T                            641
TypePositionOrientation
ORF 3 - 287: forward
ORF 303 - 1: reverse
ORF 317 - 640: forward
ORF 432 - 352: reverse
ORF 540 - 605: forward
ORF 640 - 314: reverse
ORF 641 - 552: reverse
Cluster Info:
Contig168.1 (88 members)
view Blast Searches
 
Sequence: HI08J17w
submitter of sequence: Dr. Nils Stein
length: 641
priming: 3-prime
GenBankAc: CB858882
IPK CR-EST: HI08J17w
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.
 
HI08J17w
GGAGGCTGAG ACAATATCTG GGCACAATTT ATTATCAAAC CAGAGCACGG GAATGCTCAT         60
TTAAGTACAA GATTCGACAG GATCGCAAGC ACAAGCCTGA ACATTCAACA CCAGGACACA        120
TCACAAGAAC ACACACTAGG AAAGGCACAC ATCGGGGGTG ACACACCTCG GCTTATTTCG        180
ACGAACAAGC CCCAGAAACT AAGATCATGG CTTCATCAGC GCAGCGACCT TCTGGACGGA        240
CGGCCTCGTC AGCAGGTCAG TCCACCAGGC CTTCACATGC GGGTAAGCGT CAAACAGAGA        300
TGCATAGGGT GTGGCCGCCA AGCACAGGGT GACAGACGCA TGGTTAAGGT CCGCAAGGCT        360
GAGGAAGTCT CCAGCCAGGT ACTTGGACTT GGTGAGCCGC GCCTCGTACA CCGCCAGCAC        420
GTTCTTGATC TTAACAAGGT TGTCGTCGAT GACCTTCTGG TCAGTGGCTC CCCCAAGCAT        480
AGGATGGATA AGGCACTCGA AGAGAATGGG GCTCAGAGCG GCGGTGTACT GATGGGCCTC        540
CACCTCGAGC CACACATCCA CCATTGCTGA CTCCTTGATG TCGCCCTCCT TCAACAGCTC        600
TGGCTTGTTC TTGCGGCACG CATACTTGCA AATAGCACGT G                            641
TypePositionOrientation
ORF 3 - 158: forward
ORF 121 - 38: reverse
ORF 207 - 329: forward
ORF 277 - 567: forward
ORF 341 - 276: reverse
ORF 449 - 529: forward
ORF 578 - 640: forward
ORF 639 - 208: reverse
ORF 640 - 464: reverse
Cluster Info:
Contig168.1 (88 members)
view Blast Searches
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