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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttgcaacaccggctgacatatgacatgcgtagacgaaaatttctgaaccaccgatcaacttataattatctactaatctggccgatttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATGCTCGAAAGCAATGCGCGTTTGTAGGATGGTGATTTCTGAGGTCAGCATG

Basic information

species Oryza sativa
transcript LOC_Os05g04340.2
intron # 11
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|33798704|gb|CF325210.1|CF325210
EST:     CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATG                         AACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
genomic: CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATGgtaagcttgc ... atttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
EST: gi|86251622|gb|CI016911.1|CI016911
EST:     CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATG                         AACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
genomic: CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATGgtaagcttgc ... atttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
EST: gi|86433457|gb|CI093800.1|CI093800
EST:     CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATG                         AACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
genomic: CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATGgtaagcttgc ... atttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
EST: gi|88849654|gb|CI089760.1|CI089760
EST:     CGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATG                         AACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTNATCCCCGAACATG
genomic: CGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATGgtaagcttgc ... atttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
EST: gi|86482760|gb|CI125393.1|CI125393
EST:     CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATG                         AACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
genomic: CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATGgtaagcttgc ... atttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
EST: gi|86425762|gb|CI070859.1|CI070859
EST:     GAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATG                         AACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
genomic: GAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATGgtaagcttgc ... atttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
EST: gi|88845458|gb|CI084383.1|CI084383
EST:     ACTTCAAGCCCCATG                         AACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
genomic: ACTTCAAGCCCCATGgtaagcttgc ... atttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
EST: gi|88839091|gb|CI378015.1|CI378015
EST:     CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATG                         AACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
genomic: CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATGgtaagcttgc ... atttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
EST: gi|51946083|gb|CV152424.1|CV152424
EST:     CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATG                         AACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
genomic: CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATGgtaagcttgc ... atttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
EST: gi|86256515|gb|CI061278.1|CI061278
EST:     CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATG                         AACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG
genomic: CTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCCATGgtaagcttgc ... atttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctgaaccaccgatcaacttataattatctactaatctggccgatttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATGCTCGAAAGCAATGCGCGTTTGTAGGATGGTGATTTCTGAGGTCAGCATG
                               tactaat  putative branch site (score: 1)
                 aacttataattatcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcttgcaacaccggctgacatatgacatgcgtagacgaaaatttctgaaccaccgatcaacttataattatctactaatctggccgatttgaacagAACTGAAGGGTATGCCAATGGAATTCCTGGTGAAGCTTATCCCCGAACATGCTCGAAAGCAATGCGCGTTTGTAGGATGGTGATTTCTGAGGTCAGCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG