Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGACGCATCGCCGCCGAACGTGAAGACGATGAGCCTCATCGCGCGGCAGGCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAGgtgagcgatggacgtgcctagcttgcctctcttaacgaagccacccacacgcacgctgcgtttgtgatctgctcgtttgttggctgatcgattgattcgggggcgggaaatcttacag

Basic information

species Oryza sativa
transcript LOC_Os01g62370.1
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|38471950|gb|CF956081.1|CF956081
EST:     GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAG                         GTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
genomic: GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAGgtgagcgatg ... aatcttacagGTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
EST: gi|88355657|gb|CI628941.1|CI628941
EST:     GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAG                         GTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
genomic: GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAGgtgagcgatg ... aatcttacagGTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
EST: gi|29672128|gb|CB668403.1|CB668403
EST:     GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAG                         GTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
genomic: GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAGgtgagcgatg ... aatcttacagGTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
EST: gi|218487431|gb|FG961345.1|FG961345
EST:     GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAG                         GTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCT
genomic: GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAGgtgagcgatg ... aatcttacagGTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCT
EST: gi|58673234|gb|CK061920.1|CK061920
EST:     GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAG                         GTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
genomic: GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAGgtgagcgatg ... aatcttacagGTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
EST: gi|88731779|gb|CI753499.1|CI753499
EST:     GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAG                         GTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
genomic: GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAGgtgagcgatg ... aatcttacagGTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
EST: gi|29672129|gb|CB668404.1|CB668404
EST:     GACATCTTCCACAAGAG                         GTTCGCGAGGTTCGCCAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
genomic: GACATCCTCCACAAGAGgtgagcgatg ... aatcttacagGTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
EST: gi|117233785|gb|CT847729.1|CT847729
EST:     GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAG                         GTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
genomic: GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAGgtgagcgatg ... aatcttacagGTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
EST: gi|58678107|gb|CK066794.1|CK066794
EST:     GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAG                         GTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT
genomic: GCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAGgtgagcgatg ... aatcttacagGTTCGCGAGGTTCGACAGGCGGCAGTGGCGTGAGGCGTACAAGGCCCTCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGACGCATCGCCGCCGAACGTGAAGACGATGAGCCTCATCGCGCGGCAGGCGTTCGAGATCGACGAGTACGTCAGGATCTCCGACATCCTCCACAAGAGgtgagcgatggacgtgcctagcttgcctctcttaacgaagccacccacacgcacgctgcgtttgtgatctgctcgtttgttggctgatcgattgattcgggggcgggaaatcttacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC