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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcaatttactcgttatattatgttgtgttgatcctactgtcataagcttctattgccatttggtttgatgatgcattgtacttgacgatctttttgcagGCATATCTCTAAAGACCCAGGAGCTATATGCACTTGTGTTTGCTGCTCGTTACTTGGACCTGTTCATTCATTTTATATCTCTGTATAACACTGTCATGAA

Basic information

species Oryza sativa
transcript LOC_Os11g28340.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g28340.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G031802_T02 (Zea mays), 3'ss of exon 1
tgcaatttactcgttatattatgttgtgttgatcctactgtcataagcttctattgccatttggtttgatgatgcattg---tacttgacgatctttttgcagGCATATCTCTAAAGACCCAGGAGCTATATGCACTTGTGTTTGCTGCTCGTTACTTGGACCTGTTCATTCATTTTATATCTCTGTATAACACTGTCATGAA
   | | || |  ||||    |       || |  |  | |   ||||||||||||  || ||||||||||   |  ||    || || | |  || ||| |||||||||||| ||||| |||||||| ||||||||||| ||||| || || ||| ||||||||||  |||||||| | |||||||||||||||||||||||
-ttattctagtaattattgcctaacagcatgttaatgtt-tagcaagcttctattgttatatggtttgatgggtctctgattcacatggc-actttcttgtagGCATATCTCTGAAGACACAGGAGCTGTATGCACTTGTTTTTGCAGCACGGTACCTGGACCTGTTTGTTCATTTTGTGTCTCTGTATAACACTGTCATGAA
















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|88730213|gb|CI753828.1|CI753828
EST:     CAGGTAACGCGCCACGCCGCGGACCCAAATCTTTGCTGCTGCTGCCGCGT                         GCATATCTCTAAAGACCCAGGAGCTATATGCACTTGTGTTTGCTGCTCGTT
genomic: CAGGTAACGCGCCACGCCGCGGACCCAAATCTTTGCTGCTGCTGCCGCGTgtatgatcca ... ctttttgcagGCATATCTCTAAAGACCCAGGAGCTATATGCACTTGTGTTTGCTGCTCGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcttctattgccatttggtttgatgatgcattgtacttgacgatctttttgcagGCATATCTCTAAAGACCCAGGAGCTATATGCACTTGTGTTTGCTGCTCGTTACTTGGACCTGTTCATTCATTTTATATCTCTGTATAACACTGTCATGAA
                                   acttgac  putative branch site (score: 4)
                                            tctttttgc  putative PPT
                                           atcttttt  TA-rich tract