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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cattggcttgttcccacatacagtgttttagtcattgaaattttcgaagtggttcactcttaattttgttcattctactttcctcgtgaacttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGTTCTGGGAAACCTATAGATAATGGCCCACCGATTTTACCAGAGGCTTACT

Basic information

species Oryza sativa
transcript LOC_Os01g51380.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g51380.2 (Oryza sativa), 3'ss of exon 5
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 3'ss of exon 4
cattggcttgttcccac-atacagtgttttagtcattgaaattttcgaagtggttcactcttaattttgttcat---tctactttcctcgtgaacttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGTTCTGGGAAACCTATAGATAATGGCCCACCGATTTTACCAGAGGCTTACT
      | ||  |  |   |    |||||||      | ||| ||    ||  |    | || ||||  || ||   |  | |||| ||     | |  || |||| || ||||| || || ||| |||| |||||||||||| |||||||||||||||||||||| || || || ||||| || ||| |  |||| || ||| 
----ttcctgcccgaattgttttctgttttaccttaagtaatgttgttcgtcttcagtttttgatttgattaatgatttaaatttcttctctttcatggtttagGTACTCAAAACACCGGTCTCATTGGACATGCTTGGACGTATCTTCAATGGTTCTGGGAAACCCATTGACAACGGCCCTCCCATTCTTGCAGAAGCCTACC
















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|88433134|gb|CI569803.1|CI569803
EST:     GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAG                         GTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
genomic: GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAGgtaatattct ... cttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
EST: gi|58672899|gb|CK061585.1|CK061585
EST:     GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAG                         GTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
genomic: GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAGgtaatattct ... cttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
EST: gi|88358211|gb|CI605136.1|CI605136
EST:     GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAG                         GTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
genomic: GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAGgtaatattct ... cttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
EST: gi|88360936|gb|CI625242.1|CI625242
EST:     GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAG                         GT-CTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGT
genomic: GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAGgtaatattct ... cttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGT
EST: gi|163927702|gb|EG710506.1|EG710506
EST:     GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAG                         GTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
genomic: GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAGgtaatattct ... cttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
EST: gi|88317359|gb|CI628008.1|CI628008
EST:     GAACATCTGGTATTGACAACAAATACACA-CTGTACAATTCACCGGTGAG                         GTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCT
genomic: GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAGgtaatattct ... cttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCT
EST: gi|88397163|gb|CI593375.1|CI593375
EST:     GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAG                         GTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
genomic: GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAGgtaatattct ... cttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
EST: gi|88360978|gb|CI625284.1|CI625284
EST:     GAACATCTGGTATTGACAACAAATACACAACTGTAAAATTCACCGGTGAG                         GTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
genomic: GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAGgtaatattct ... cttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
EST: gi|88356589|gb|CI626204.1|CI626204
EST:     GAACATCTGGTATTGACAACAAATACA-AACTGTACAATTCACCGGTGAG                         GTTCTAAAAACTCCAGTGTCACTGGATATGCT
genomic: GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAGgtaatattct ... cttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCT
EST: gi|88388263|gb|CI627802.1|CI627802
EST:     GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAG                         GTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATG
genomic: GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAGgtaatattct ... cttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATG
EST: gi|66915737|gb|CX102585.1|CX102585
EST:     GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAG                         GTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT
genomic: GAACATCTGGTATTGACAACAAATACACAACTGTACAATTCACCGGTGAGgtaatattct ... cttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagtggttcactcttaattttgttcattctactttcctcgtgaacttttttcagGTTCTAAAAACTCCAGTGTCACTGGATATGCTTGGACGTGTCTTCAATGGTTCTGGGAAACCTATAGATAATGGCCCACCGATTTTACCAGAGGCTTACT
            tcttaat  putative branch site (score: 3)
                                             cttttttc  putative PPT
              ttaattttgttcatt  TA-rich tract