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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctcttctttctttccctcattacctcgtgaaacctttttcttttttgtttagctgatattacgatgatctgatccttaattatggtgcaaattatgcaagttactttgacatattatgatttaatacttggatttccagGCATTTCACAAGTCGCATTTATTAAGGCTAAGGGTGGCACCGTCAGAGACTGCTATGAGTGATGTTCTTCGTGAG

Basic information

species Arabidopsis thaliana
transcript AT5G60550.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G60550.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G40190.1 (Glycine max), 3'ss of exon 5
gtaagctcttctttctttccctcattacctcgtgaaacctttttcttttttgtttagctgatattacgatgatctgatccttaattatggtgcaaattatgcaagttactttgacatattatgatttaatacttggatttccagGCATTTCACAAGTCGCATTTATTAAGGCTAAGGGTGGCACCGTCAGAGACTGCTATGAGTGATGTTCTTCGTGAG
                             |  | |||   |       |   |  | |    ||     | || | ||    ||| | | | |        ||| ||| || ||  |        | | |  || ||  | ||| | ||||||||||| || |||  || |||  | || |||||||| ||||||||||||| ||||||||| ||||||
----------------------------ataatcaaaggctcactgcctcactgcaacatgcatgtgtgtaatgttat----aatcaagatacgggc---acaa-ttatttagatgt--------taactcttttgaactgcagTCCTTTCACAAGTCTCAATTACAAAAGCTTCGAGTTGCACCGTCTGAGACTGCTATGACTGATGTTCTACGTGAG
















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|164214175|gb|ES035329.1|ES035329
EST:     GTTTTATATCGAAGCACTTTAGACGGCCAGTATTATGCTATCAAG                         GCATTTCACAAGTCGCAT
genomic: GTTTTATATCGAAGCACTTTAGACGGCCAGTATTATGCTATCAAGgtaagctctt ... ggatttccagGCATTTCACAAGTCGCAT
EST: gi|164100757|gb|ES050292.1|ES050292
EST:     GTTTTATATCGAAGCACTTTAGACGGCCAGTATTATGCTATCAAG                         GCATT-CACAAGTCG
genomic: GTTTTATATCGAAGCACTTTAGACGGCCAGTATTATGCTATCAAGgtaagctctt ... ggatttccagGCATTTCACAAGTCG
EST: gi|164104325|gb|ES057652.1|ES057652
EST:     AAGTGGTTTTATATCGAAGCACTTTAGACGGCCAGTATTATGCTATCAAG                         GCATTTCACAAGTCGCATTTATTAAGGCTAAGGGTGGCACCGTC
genomic: AAGTGGTTTTATATCGAAGCACTTTAGACGGCCAGTATTATGCTATCAAGgtaagctctt ... ggatttccagGCATTTCACAAGTCGCATTTATTAAGGCTAAGGGTGGCACCGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgcaaattatgcaagttactttgacatattatgatttaatacttggatttccagGCATTTCACAAGTCGCATTTATTAAGGCTAAGGGTGGCACCGTCAGAGACTGCTATGAGTGATGTTCTTCGTGAG
                                  atttaat  putative branch site (score: 4)
                                                tttcc  putative PPT
                    tttgacatattatgat  TA-rich tract