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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaacaaaagtttcctaaattgtaggtcattatcattgatccatgtaacctgaattttttttccaacagaactttgttttgaatcatttggtctcttttagGTCTCACGGAGACTTGTGCTGGATCTTTCGTCTCCCTACCAAATCAGATGTGCATGATAGGGACTGTTGGTCCTCCAGTGCCAAATATTGATGTCTGCCT

Basic information

species Oryza sativa
transcript LOC_Os01g46750.2
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g46750.1 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM5G861300_T01 (Zea mays), 3'ss of exon 14
aaacaaaagtttcctaaattgtaggtcattatcattgatccatgtaacctgaattttttttccaacagaactttgttttgaatcatt-tggtctcttttagGTCTCACGGAGACTTGTGCTGGATCTTTCGTCTCCCTACCAAATCAGATGTGCATGATAGGGACTGTTGGTCCTCCAGTGCCAAATATTGATGTCTGCCT
   |||   | | ||    |  |||  || | ||    |   |           |  | | || | |      ||| || | ||||  |  |  |||||||| |||||||| ||||||||||||||||||||||| ||||||||||| |||| ||||||||| |||||||| || ||||||||||| || |||||  | ||
-cgcaagcttatgcttttattgaggatatgaacagaactttcttctcttctccatcctatacccatacttgaatgtcttcactcatcatctttccttttagGCCTCACGGAAACTTGTGCTGGATCTTTCGTCTCGCTACCAAATCAAATGTCCATGATAGGAACTGTTGGCCCCCCAGTGCCAAACATCGATGTTCGTCT
















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|58679458|gb|CK068145.1|CK068145
EST:     TGAAGAATACCTGAGAGTGGTGACTTGTGCACATGTCTTACAAGGATATG                         GTCTCACGGAGACTTGTGCTGGATCTTTCGTCTCCCTACCAAATCAGATGT
genomic: TGAAGAATACCTGAGAGTGGTGACTTGTGCACATGTCTTACAAGGATATGgtatatcttt ... tctcttttagGTCTCACGGAGACTTGTGCTGGATCTTTCGTCTCCCTACCAAATCAGATGT
EST: gi|29673146|gb|CB669421.1|CB669421
EST:     TGAAGAATACCTGAGAGTGGTGACTTGTGCACATGTCTTACAAGGATATG                         GTCTCACGGAGACTTGTGCTGGATCTTTCGTCTCCCTACCAAATCAGATGT
genomic: TGAAGAATACCTGAGAGTGGTGACTTGTGCACATGTCTTACAAGGATATGgtatatcttt ... tctcttttagGTCTCACGGAGACTTGTGCTGGATCTTTCGTCTCCCTACCAAATCAGATGT
EST: gi|58672830|gb|CK061516.1|CK061516
EST:     TGAAGAATACCTGAGAGTGGTGACTTGTGCACATGTCTTACCAGGATATG                         GTCTCACGGAGACTTGTGCTGGATCTTTCGT
genomic: TGAAGAATACCTGAGAGTGGTGACTTGTGCACATGTCTTACAAGGATATGgtatatcttt ... tctcttttagGTCTCACGGAGACTTGTGCTGGATCTTTCGT
EST: gi|56157720|gb|C25972.2|C25972
EST:     TGAAGAATACCTGAGAGTGGTGACTTGTGCACATGTCTTACAAGGATATG                         GTCTCACGGAGACTTGTGCTGGATCTTTCGTCTCCCTACCAAATCAGATGT
genomic: TGAAGAATACCTGAGAGTGGTGACTTGTGCACATGTCTTACAAGGATATGgtatatcttt ... tctcttttagGTCTCACGGAGACTTGTGCTGGATCTTTCGTCTCCCTACCAAATCAGATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacctgaattttttttccaacagaactttgttttgaatcatttggtctcttttagGTCTCACGGAGACTTGTGCTGGATCTTTCGTCTCCCTACCAAATCAGATGTGCATGATAGGGACTGTTGGTCCTCCAGTGCCAAATATTGATGTCTGCCT
 atgtaac  putative branch site (score: 3)
                                             tctctttt  putative PPT
      aattttttttccaa  TA-rich tract