Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCTGTATTAGCTCTGAAATATTTCAGATATACATACAGACCTAGTGCTATTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctggagtctcaactgagatcagatatggagaacacgaacatttccatttcaacaccaccagtgaagaacaagaattctgtttatgagcccttac...

Basic information

species Oryza sativa
transcript LOC_Os11g25980.2
intron # 26
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|88558424|gb|CI488908.1|CI488908
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88531990|gb|CI461443.1|CI461443
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88559322|gb|CI489889.1|CI489889
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88557776|gb|CI488210.1|CI488210
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88548711|gb|CI478529.1|CI478529
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88536028|gb|CI465751.1|CI465751
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88321476|gb|CI535428.1|CI535428
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88544107|gb|CI474174.1|CI474174
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88528061|gb|CI456266.1|CI456266
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88534620|gb|CI463356.1|CI463356
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88534388|gb|CI463108.1|CI463108
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88525739|gb|CI452766.1|CI452766
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88559661|gb|CI490259.1|CI490259
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88531841|gb|CI460356.1|CI460356
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88522652|gb|CI449481.1|CI449481
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88547281|gb|CI477565.1|CI477565
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88556686|gb|CI487027.1|CI487027
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88527302|gb|CI455447.1|CI455447
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88545625|gb|CI475196.1|CI475196
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88536645|gb|CI465304.1|CI465304
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88534708|gb|CI463451.1|CI463451
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88538184|gb|CI467194.1|CI467194
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88548251|gb|CI476607.1|CI476607
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88556175|gb|CI486485.1|CI486485
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
EST: gi|88559435|gb|CI490007.1|CI490007
EST:     TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTG                         ATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA
genomic: TTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctgg ... tttttttcagATATGCCCCTGAGTGTGTTTTGAGCTGATTATTCCTAGCTCCAAGGAATCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCCTGTATTAGCTCTGAAATATTTCAGATATACATACAGACCTAGTGCTATTAACATTCTTCAGAAGGCTGAGCGATCACGTGGGCCAATGTACACACTGgtaaacctggagtctcaactgagatcagatatggagaacacgaacatttccatttcaacaccaccagtgaagaacaagaattctgtttatgagcccttac

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caccacc