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

AGAAGATCCTGCTCCAGAAGGAGTTGAATACAAGCATGGTCTTACTCCTCCAATGAGGGACGCACGCAGGCGGCGTTTCCGCAGGGAGCCTGATTTGAATgtattctgtgccttccctttagatctgttgtttttcatgttcacggaaacactttctcaatcataacggtgattgctcttcactcttttatgtag

Basic information

species Oryza sativa
transcript LOC_Os05g28010.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g28010.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G147614_T04 (Zea mays), 5'ss of exon 1
AGAAGATCCTGCTCCAGAAGGAGTTGAATACAAGCATGGTCTTACTCCTCCAATGAGGGACGCACGCAGGCGGCGTTTCCGCAGGGAGCCTGATTTGAATgta------ttctgtgccttccctttagatctgttgttt--ttcatgttcacggaaacactttctcaatcataacggtgattgctcttcactcttttatgtag
| | |||||||||||||||||||| || ||||||||||| |||||||||||||||||||| ||||||||||| ||||||||||| || || || ||||| |||      ||   |||| ||    |  |  ||||      ||||||||||  |||||||||    |     |||  |||||  || ||   |  || || ||
AAATGATCCTGCTCCAGAAGGAGTCGAGTACAAGCATGGGCTTACTCCTCCAATGAGGGATGCACGCAGGCGACGTTTCCGCAGAGAACCAGACTTGAACgtaataaaatttattgccctcgagctctacttgttacccagttcatgttcatagaaacacttct--aggtggaactctgattattcctcgtacaattttgcag

upper sequence: LOC_Os05g28010.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G454830_T01 (Zea mays), 5'ss of exon 4
AGAAGATCCTGCTCCAGAAGGAGTTGAATACAAGCATGGTCTTACTCCTCCAATGAGGGACGCACGCAGGCGGCGTTTCCGCAGGGAGCCTGATTTGAATgtattctgtgccttccctttagatctgttgttt--ttcatgttcacggaaacactttctcaatcataacggtgattgctcttcactcttttatgtag
| | ||||||||||||||||||||||| ||||||||||| |||||||||||||||||||| ||||||||||| ||||||||||| || || || ||||| ||| |               | || ||||      ||||||||||  |||||||||    |     |||  |||||  || |    |  || || ||
AAATGATCCTGCTCCAGAAGGAGTTGAGTACAAGCATGGGCTTACTCCTCCAATGAGGGATGCACGCAGGCGACGTTTCCGCAGAGAACCAGACTTGAACgtaata--------------aaatttgttacccagttcatgttcatagaaacacttct--aggtggaaccctgattattccttgtacaattttgcag

upper sequence: LOC_Os05g28010.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G029038_T01 (Zea mays), 5'ss of exon 3
AGAAGATCCTGCTCCAGAAGGAGTTGAATACAAGCATGGTCTTACTCCTCCAATGAGGGACGCACGCAGGCGGCGTTTCCGCAGGGAGCCTGATTTGAATgta------ttctgtgccttccctttagatctgttgttt--ttcatgttcacggaaacactttctcaatcataacggtgattgctcttcactcttttatgtag
| | ||||||||||||||||||||||| ||||||||||| |||||||||| ||||||||| ||||||||||| |||||||| || || || || ||||| |||      ||   |||| ||    |  | |||||      ||||||||||  |||||||||    |     |||  |||||  || |    |  || || ||
AAATGATCCTGCTCCAGAAGGAGTTGAGTACAAGCATGGGCTTACTCCTCTAATGAGGGATGCACGCAGGCGACGTTTCCGTAGAGAACCAGACTTGAACgtaataaaatttattgccctctagctctacctgttacccagttcatgttcatagaaacacttct--aggtggaaccctgattattccttgtacaattttgcag

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|88223765|gb|CI223614.1|CI223614
EST:     CAATGAGGGACGCACGCAGGCGGCGTTTCCGCAGGGAGCCTGATTTGAAT                         GCCGAACTTGTTCACCGAGTTGAGAAGGATCTCATTAGTATTATGCATGGG
genomic: CAATGAGGGACGCACGCAGGCGGCGTTTCCGCAGGGAGCCTGATTTGAATgtattctgtg ... ttttatgtagGCCGAACTTGTTCACCGAGTTGAGAAGGATCTCATTAGTATTATGCATGGG
EST: gi|88977292|gb|CI025029.1|CI025029
EST:     CAATGAGGGACGCACGCAGGCGGCGTTTCCGCAGGGAGCCTGATTTGAAT                         GCCGAACTTGTTCACCGAGTTGAGAAGGATCTCATTAGTATTATGCATGGG
genomic: CAATGAGGGACGCACGCAGGCGGCGTTTCCGCAGGGAGCCTGATTTGAATgtattctgtg ... ttttatgtagGCCGAACTTGTTCACCGAGTTGAGAAGGATCTCATTAGTATTATGCATGGG