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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcttcaattgcaatatagatagtgctataaatcttttttcatctttcttatccaattgaattcagcaagtttttctgtatttacagcataggcaaagtttgcactgacaattatggcatattatacatcatgttttgagcataatcaccattcagtatttgttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTGATCGAAGTCGGTGGAAATTCTCACGCCAATGCTATATATGAAACCTTCC

Basic information

species Oryza sativa
transcript LOC_Os02g10480.1
intron # 4
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|88734623|gb|CI758131.1|CI758131
EST:     GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAG                         GTTCTGTCAGTCACACT
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACT
EST: gi|66928181|gb|CX115029.1|CX115029
EST:     GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACGCACATTTCAAAG                         GTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
EST: gi|58656726|gb|CK045406.1|CK045406
EST:     GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAG                         GTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
EST: gi|2310113|gb|C26268.1|C26268
EST:     GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAG                         GTTCTGTCAGTCACACTAGATCAGTGGAGTNACAATGAAATTGATAACGTG
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
EST: gi|88732043|gb|CI757220.1|CI757220
EST:     GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAG                         GTTCTGTCAGTCACACTAGATCAGTGGAGTGAAAATGAAATTGATAACGTG
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
EST: gi|88388036|gb|CI590312.1|CI590312
EST:     GCCTCAAGTGTTCCGGTGTT-ACAGAAGTCTTGGCACACACATTTCAAAG                         GTTCTGTTAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
EST: gi|88735087|gb|CI758595.1|CI758595
EST:     GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAG                         GTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
EST: gi|88727576|gb|CI751231.1|CI751231
EST:     GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAG                         GTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
EST: gi|88305672|gb|CI632039.1|CI632039
EST:     GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTCGGCACACACATTTCAAAG                         GTTCTGTCAGTCACACTAGATCAGTGGAGTG
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTG
EST: gi|88385241|gb|CI630342.1|CI630342
EST:     GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAG                         GTTCTGTCAGTCACACTAGATCAGTGGAGTGACAAT
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAAT
EST: gi|88735299|gb|CI758807.1|CI758807
EST:     GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAG                         GTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catattatacatcatgttttgagcataatcaccattcagtatttgttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTGATCGAAGTCGGTGGAAATTCTCACGCCAATGCTATATATGAAACCTTCC
                                         tttgtttt  CT-rich tract
                                       tatttgtttt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttcttcaattgcaatatagatagtgctataaatcttttttcatctttcttatccaattgaattcagcaagtttttctgtatttacagcataggcaaagtttgcactgacaattatggcatattatacatcatgttttgagcataatcaccattcagtatttgttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTGATCGAAGTCGGTGGAAATTCTCACGCCAATGCTATATATGAAACCTTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA