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

...atttatctgaagcttgttctctagattaatttaacatagtgaagtctcatgaacttagttagcctcacgcaattgcggttgtcctgattactatgcgcagTTGAGCATCTTTCCTGGTCCTTGGTGTATCACAAGGAAGCAGTTCCGTCGCAAGTCAAGACTCATGTGGTGAATCTTTCCTACCATCGCACAGACCGAGT

Basic information

species Arabidopsis thaliana
transcript AT5G56180.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G56180.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA04G12490.2 (Glycine max), 3'ss of exon 11
---atttatctgaagcttgttctctagattaatttaacatagtgaagtctcatgaacttagttagcctcacgcaattgcggttgtcctgattactatgcgcagTTGAGCATCTTTCCTGGTCCTTGGTGTATCACAAGGAAGCAGTTCCGTCGCAAGTCAAGACTCATGTGGTGAATCTTTCCTACCATCGCACAGACCGAGT-
    |||| | |||  |||  |  |      || |    |||| ||        ||   |||    ||    |||       |||| |    | | ||  |||||||||| ||||||||||| ||||||  ||||||  |||||||||||||  ||| | |||||||        ||  |   |    |   ||| |     | 
catttttagccgaacgttgaccattttccatatattttgtagtaaacgtaataaaaaagagtc--tctgcttcaaggctaactgtctttga-attgtgtacagTTGAGCACCTTTCCTGGTCATTGGTGCGTCACAAAAAAGCAGTTCCGTCAGAAGCCTAGACTCA-ACCTCATATGGTGATTGTTGTGATACAAAATTTATT
















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|19742217|gb|AU227570.1|AU227570
EST:     CTCCTTACGGCGTGGACACATCATGGCATGGGGCAAAGCTTATTAGTAAT                         TTGAGCATCTTTCCTGGTCCTTGGTGTATCAC-AGGAAGCAGTTCCGTCGC
genomic: CTCCTTACGGCGTGGACACATCATGGCATGGGGCAAAGCTTATTAGTAATgtaagtgata ... ctatgcgcagTTGAGCATCTTTCCTGGTCCTTGGTGTATCACAAGGAAGCAGTTCCGTCGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcatgaacttagttagcctcacgcaattgcggttgtcctgattactatgcgcagTTGAGCATCTTTCCTGGTCCTTGGTGTATCACAAGGAAGCAGTTCCGTCGCAAGTCAAGACTCATGTGGTGAATCTTTCCTACCATCGCACAGACCGAGT
                                    tcctgat  putative branch site (score: 3)
                                         attactat  TA-rich tract