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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaagtaattatataatcctaaaaatgctatcatagccacctaacctattgttattgctataatcgatgcatttgtattaatgtagttctattgatgtcagGTTAGTGAACAAGGATCTTGATTTCCCATTTTTGGCCCTCCTAATTTCAG

Basic information

species Oryza sativa
transcript LOC_Os12g29990.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g29990.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G420055_T02 (Zea mays), 3'ss of exon 2
-----------------------------------------------aaagtaat--tatataatcctaaa-aatgctatcatagccacctaacctattgttattgctat--aatcgatgcatttgta-ttaatgtagttctattgatgtcagGTTAGTGAACAAGGATCTTGATTTCCCATTTTTGGCCCTCCTAATTTCAG
                                               |    |||  ||||| | |    | |||  |     ||   |  |    |||  ||    |||  |  |  || | | | |  | |||| |||  ||   ||||||| ||| ||| ||||| ||||||||||||||| |||| || |||||||| |
gttcgagaataaacatgacttagaacatgctaaatttgttaatcctaaggacaatgctatatgaactgggacaatattgcttaagtgcctcactacatttctaactttatgcatgcactgtactcgcagctgatgttgtttgaTCCTTGTCAGGCTAGCGAATAAGGACCTTGATTTCCCATTTCTGGCTCTTCTAATTTCCG
















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|58678884|gb|CK067571.1|CK067571
EST:     CTGCCTATTGTTGGAGTTCATCATATGGAGGCACATGCATTAGTTTCCAG                         GTTAGTGAACAAGGATCTTGATTTCCCATTTTTGGCCCTCCTAATTTCAG
genomic: CTGCCTATTGTTGGAGTTCATCATATGGAGGCACATGCATTAGTTTCCAGgtatccaacc ... ttgatgtcagGTTAGTGAACAAGGATCTTGATTTCCCATTTTTGGCCCTCCTAATTTCAG
EST: gi|29616287|gb|CB621299.1|CB621299
EST:     CTGCCTATTGTTGGAGTTCATCATATGGAGGCACATGCATTAGTTTCCAG                         GTTAGTGAACAAGGATCTTGATTTCCCATTTTTGGCCCTCCTAATTTCAG
genomic: CTGCCTATTGTTGGAGTTCATCATATGGAGGCACATGCATTAGTTTCCAGgtatccaacc ... ttgatgtcagGTTAGTGAACAAGGATCTTGATTTCCCATTTTTGGCCCTCCTAATTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattgttattgctataatcgatgcatttgtattaatgtagttctattgatgtcagGTTAGTGAACAAGGATCTTGATTTCCCATTTTTGGCCCTCCTAATTTCAG
                                        ttctatt  CT-rich tract
                        atttgtattaatgta  TA-rich tract