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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCCCTCCCGTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttccccccgcaccgaaatctcggcgcccccactcgcttcatagttgatatatttttttctgttggtctggctgctgatggatggcgcctgagaa...

Basic information

species Oryza sativa
transcript LOC_Os07g12650.4
intron # 2
splice site 5'
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|55432687|gb|CV729364.1|CV729364
EST:     GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCA-GAGAC-TGGC                         GGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
genomic: GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttcc ... atccatgcagGGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
EST: gi|88722319|gb|CI745829.1|CI745829
EST:     GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGC                         GGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
genomic: GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttcc ... atccatgcagGGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
EST: gi|13806613|gb|AU181586.1|AU181586
EST:     GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGC                         GGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
genomic: GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttcc ... atccatgcagGGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
EST: gi|88358899|gb|CI619403.1|CI619403
EST:     GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGC                         GGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
genomic: GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttcc ... atccatgcagGGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
EST: gi|88357562|gb|CI623616.1|CI623616
EST:     GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGC                         GGAAGAGACTCCAGTTGAGGCCCC
genomic: GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttcc ... atccatgcagGGAAGAGACTCCAGTTGAGGCCCC
EST: gi|568095|gb|D38930.1|D38930
EST:     CGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGC                         GGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
genomic: CGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttcc ... atccatgcagGGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
EST: gi|88332492|gb|CI651652.1|CI651652
EST:     GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGC                         GGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGCTCTTGGAGAGCCGAT
genomic: GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttcc ... atccatgcagGGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
EST: gi|88339791|gb|CI649048.1|CI649048
EST:     GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGC                         GGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
genomic: GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttcc ... atccatgcagGGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
EST: gi|58586800|gb|CF985108.1|CF985108
EST:     GTCGCTGTCGG-CCCTCGGGTCTTTCTAGCGCAGGAGACATGGC                         GGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
genomic: GTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttcc ... atccatgcagGGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
EST: gi|218485304|gb|FG956287.1|FG956287
EST:     GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGC                         GGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
genomic: GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttcc ... atccatgcagGGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
EST: gi|427734|gb|D23869.1|D23869
EST:     GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGC                         GGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT
genomic: GTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttcc ... atccatgcagGGAAGAGACTCCAGTTGAGGCCCCACCTGCCCCGGTTCTTGGAGAGCCGAT

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCCCTCCCGTCGTCGTCGCTGTCGGCCCCTCGGGTCTTTCTAGCGCAGGAGACATGGCgtaagtttccccccgcaccgaaatctcggcgcccccactcgcttcatagttgatatatttttttctgttggtctggctgctgatggatggcgcctgagaa

- - - - - - - - - - - - - - - - - - - - - - -  AGGAGA