Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGTCACTCACTGATGGATCAGTGTTTGATTCTAGCTATGACAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattccttttccctggaatactgaacttctccatatttatccatagtccatactgaggtagcttgaatgaccaaggatgttatcaaaaataggaaatggactgtgcagttcatatcaatggccttcgcatatccaacaacctacattgttgtttttatctatag

Basic information

species Oryza sativa
transcript LOC_Os01g68710.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g68710.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G031204_T01 (Zea mays), 5'ss of exon 4
GGGTCACTCACTGATGGATCAGTGTTTGATTCTAGCTATGACAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattccttttccctggaatactgaacttctccatatttatccatagtccatactgaggtagcttgaatgaccaaggatgttatcaaaaataggaaatggactgtgcagttcatatcaatggccttcgcatatccaacaacctacattgttgttttt--atctatag
||| |||||||||| |||||||| ||||||||| ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||| | |    ||||||| || | |  |||| || || ||| | |          ||| |||   |||  | ||| |          |||   | || ||||  | |||  || |||||    ||  ||    || |  ||||| |  |||||||||||  | || |||
GGGGCACTCACTGACGGATCAGTTTTTGATTCTGGCTATGACAGAGGTGACCCGTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgtcactgtccttccctgtaacaatagactt-tctatgtttttac----------ctgtggtgcattgtgtcaccgaa---------aaacggatgagatggcatatgccatttatatcggacgcgatcttgaattcgccaaccgattttgttgttttttcacctgtag

upper sequence: LOC_Os01g68710.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G153991_T01 (Zea mays), 5'ss of exon 4
GGGTCACTCACTGATGGATCAGTGTTTGATTCTAGCTATGACAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattccttttccctgga---atactgaacttctccatatttatccatagtcca-------tactgaggtagcttga---atgaccaagg---atgttatc-----aaaaatag--gaaatggactgtgcagttcatatcaatggccttcgcatatccaacaacctacattgttgtttttatctatag
||| ||||||||||||||||||| || |||||||||||||||||||||||||| |||||||| ||||||||||| |||||||||||||||||||| |    || |||  |   | | | || || ||||| ||||||  | |||||       |||| |  |    ||    || |   | |   | || | |     |||||| |  |||||||  | |||  || |||| |   ||   |  | ||||  ||||  ||  ||| ||||  |||| |||
GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGACCCGTTTGAATTCACTCTTGGAAATGGCCAAGTGATAAAAGgttactgtcctttcctatagccacaataaagtt-tccatgtttatctgtggtccagtgtccatactaaactgtactgggatataatataagcatacgtcacccaaaaaaaaatggatgaaatggcatatgccatttatatgacacgcaaccttaaatccgccaactgactctgtcgtttccatctgtag
















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|29679614|gb|CB675889.1|CB675889
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|3762510|gb|AU029262.1|AU029262
EST:     CAGAGGTGNCCCCTTTGAATTTACTCTTGGANACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATAGTGTGTCGGTGAAAAGTGGAAGCTA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTAT-GTGTGTCGGTGAAAAGAGGAAGCTA
EST: gi|55438455|gb|CV732524.1|CV732524
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88276548|gb|CI397350.1|CI397350
EST:     CAGAGGTGACCCCTTTGAATTTACTCTT-GAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88242499|gb|CI242348.1|CI242348
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|9055415|gb|AU097613.1|AU097613
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88207641|gb|CI207490.1|CI207490
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|86824178|gb|CI260793.1|CI260793
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|86829393|gb|CI285036.1|CI285036
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|55436956|gb|CV731667.1|CV731667
EST:     CAGAGGTGACCCCTTTAAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|15008509|gb|AU222897.1|AU222897
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|86824137|gb|CI260768.1|CI260768
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA