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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTGCGACGGATTTTCTCGAGATAAGGGCCAAAGAGCCGTCTGTTCATGTTCTGGTTATTCCCGGAAATCCAGgttagtggcacactgaagatcggtgagaattgatgtgttgcattgctcatgaaagagtattgaggtcattggagaatcctgttgctgtttggcag

Basic information

species Oryza sativa
transcript LOC_Os01g72870.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g72870.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G133959_T01 (Zea mays), 5'ss of exon 2
-----------------------CTTTGCGACGGATTTTCTCGAGATAAGGGCCAAAGAGCCGTCTGTTCATGTTCTGGTTATTCCCGGAAATCCAGgttagtggcacactgaagatcggtgagaattgatgtgttgcattgctcatgaaagagtattgaggtcattggagaatcctgttgctgtttggcag
                       ||||||||||||  | |||||||||||| |||||||||||||  | || || ||| ||||| | || || ||||||  |||   | |      |      |||   | |    | |||| | |||     | | |   |         | |     | |||||  | ||
GTGCTCGCGGCGATTCCCTGCAGCTTTGCGACGGAACTGCTCGAGATAAGGTCCAAAGAGCCGTCCCTCCACGTGCTGCTTATTGCTGGGAACCCAGgtccgtgtgccgccacgcttatagtcgaagcaagggagaggattggtaatgttcatgcactcttgaatgaaactagtttctgttctgttctgtag

upper sequence: LOC_Os01g72870.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G133959_T02 (Zea mays), 5'ss of exon 3
CTTTGCGACGGATTTTCTCGAGATAAGGGCCAAAGAGCCGTCTGTTCATGTTCTGGTTATTCCCGGAAATCCAGgttagtggcacactgaagatcggtgagaattgatgtgttgcattgctcatgaaagagtattgaggtcattggagaatcctgttgctgtttggcag
||||||||||||  | |||||||||||| |||||||||||||  | || || ||| ||||| | || || ||||||  |||   | |      |      |||   | |    | |||| | |||     | | |   |         | |     | |||||  | ||
CTTTGCGACGGAACTGCTCGAGATAAGGTCCAAAGAGCCGTCCCTCCACGTGCTGCTTATTGCTGGGAACCCAGgtccgtgtgccgccacgcttatagtcgaagcaagggagaggattggtaatgttcatgcactcttgaatgaaactagtttctgttctgttctgtag
















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|88433475|gb|CI594289.1|CI594289
EST:     AAGGGCCAAAGAGCCGTCTGTTCATGTTCTGGTTATTCCCGGAAATCCAG                         GTATCGTTGCATTCTACAAGGACTTTGTTGAAGAGCTCTATGAGAACCTCG
genomic: AAGGGCCAAAGAGCCGTCTGTTCATGTTCTGGTTATTCCCGGAAATCCAGgttagtggca ... tgtttggcagGTATCGTTGCATTCTACAAGGACTTTGTTGAAGAGCTCTATGAGAACCTCG
EST: gi|27576528|gb|CA999222.1|CA999222
EST:     AAGGGCCAAAGAGCCGTCTGTTCATGTTCTGGTTATTCCCGGAAATCCAG                         GTATCGTTGCATTCTACAAGGACTTTGTTGAAGAGCTCTATGAGAACCTCG
genomic: AAGGGCCAAAGAGCCGTCTGTTCATGTTCTGGTTATTCCCGGAAATCCAGgttagtggca ... tgtttggcagGTATCGTTGCATTCTACAAGGACTTTGTTGAAGAGCTCTATGAGAACCTCG
EST: gi|58677445|gb|CK066132.1|CK066132
EST:     AAGGGCCAAAGAGCCGTCTGTTCATGTTCTGGTTATTCCCGGAAATCCAG                         GTATCGTTGCATTCTACAAGGACTTTGTTGAAGAGCTCTATGAGAACCTCG
genomic: AAGGGCCAAAGAGCCGTCTGTTCATGTTCTGGTTATTCCCGGAAATCCAGgttagtggca ... tgtttggcagGTATCGTTGCATTCTACAAGGACTTTGTTGAAGAGCTCTATGAGAACCTCG
EST: gi|163918268|gb|EG713182.1|EG713182
EST:     AAGGGCCAAAGAGCCGTCTGTTCATGTTCTGGTTATTCCCGGAAATCCAG                         GTATCGTTGCATTCTACAAGGACTTTGTTGAAGAGCTCTATGAGAACCTCG
genomic: AAGGGCCAAAGAGCCGTCTGTTCATGTTCTGGTTATTCCCGGAAATCCAGgttagtggca ... tgtttggcagGTATCGTTGCATTCTACAAGGACTTTGTTGAAGAGCTCTATGAGAACCTCG